https://launchpad.net/~ci-train-ppa-service/+archive/ubuntu/3862/+build/18226031 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-077 4.4.0-170-generic #199-Ubuntu SMP Thu Nov 14 01:46:18 UTC 2019 aarch64 Buildd toolchain package versions: launchpad-buildd_183 python-lpbuildd_183 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.6 dpkg-dev_1.18.4ubuntu1.6 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 9 Dec 20:13:56 ntpdate[1917]: adjust time server 10.211.37.1 offset -0.033723 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18226031 --image-type chroot /home/buildd/filecache-default/f005b6164729459c78307140747b338a2f357aa2 Creating target for build PACKAGEBUILD-18226031 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18226031 Starting target for build PACKAGEBUILD-18226031 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18226031 'deb http://ftpmaster.internal/ubuntu focal main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu focal-security main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu focal-updates main restricted universe multiverse' Overriding sources.list in build-PACKAGEBUILD-18226031 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18226031 Updating target for build PACKAGEBUILD-18226031 Get:1 http://ftpmaster.internal/ubuntu focal InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu focal-security InRelease [79.7 kB] Get:3 http://ftpmaster.internal/ubuntu focal-updates InRelease [79.7 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main armhf Packages [930 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main Translation-en [499 kB] Get:6 http://ftpmaster.internal/ubuntu focal/restricted armhf Packages [7048 B] Get:7 http://ftpmaster.internal/ubuntu focal/restricted Translation-en [5768 B] Get:8 http://ftpmaster.internal/ubuntu focal/universe armhf Packages [8437 kB] Get:9 http://ftpmaster.internal/ubuntu focal/universe Translation-en [5186 kB] Get:10 http://ftpmaster.internal/ubuntu focal/multiverse armhf Packages [123 kB] Get:11 http://ftpmaster.internal/ubuntu focal/multiverse Translation-en [111 kB] Fetched 15.7 MB in 8s (2082 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libhogweed4 libisl21 libnettle6 libperl5.28 perl-modules-5.28 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libhogweed5 libisl22 libnettle7 libperl5.30 perl-modules-5.30 The following packages will be upgraded: base-files bash binutils binutils-arm-linux-gnueabihf binutils-common bzip2 cpp-9 debianutils g++-9 gcc-9 gcc-9-base gpg gpg-agent gpgconf gpgv hostname libacl1 libapparmor1 libasan5 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libbz2-1.0 libcap-ng0 libcap2 libcc1-0 libcryptsetup12 libdebconfclient0 libdevmapper1.02.1 libgcc-9-dev libgcc1 libgcrypt20 libgnutls30 libgomp1 libjson-c4 libkmod2 liblockfile-bin liblockfile1 liblz4-1 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libselinux1 libsemanage-common libsemanage1 libsqlite3-0 libstdc++-9-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libubsan1 libudev1 libzstd1 linux-libc-dev lsb-base ncurses-base ncurses-bin perl perl-base sensible-utils systemd systemd-sysv sysvinit-utils 71 upgraded, 5 newly installed, 0 to remove and 0 not upgraded. Need to get 48.9 MB of archives. After this operation, 41.1 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu focal/main armhf base-files armhf 11ubuntu2 [59.8 kB] Get:2 http://ftpmaster.internal/ubuntu focal/main armhf debianutils armhf 4.9.1 [84.6 kB] Get:3 http://ftpmaster.internal/ubuntu focal/main armhf bash armhf 5.0-5ubuntu1 [576 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main armhf hostname armhf 3.23 [10.4 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main armhf ncurses-bin armhf 6.1+20191019-1ubuntu1 [163 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main armhf perl-modules-5.30 all 5.30.0-9 [2739 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main armhf libperl5.30 armhf 5.30.0-9 [3286 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main armhf perl armhf 5.30.0-9 [224 kB] Get:9 http://ftpmaster.internal/ubuntu focal/main armhf perl-base armhf 5.30.0-9 [1408 kB] Get:10 http://ftpmaster.internal/ubuntu focal/main armhf bzip2 armhf 1.0.8-2 [32.4 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main armhf libbz2-1.0 armhf 1.0.8-2 [31.0 kB] Get:12 http://ftpmaster.internal/ubuntu focal/main armhf ncurses-base all 6.1+20191019-1ubuntu1 [17.9 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main armhf lsb-base all 11.1.0ubuntu1 [12.2 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main armhf sysvinit-utils armhf 2.96-1ubuntu1 [19.2 kB] Get:15 http://ftpmaster.internal/ubuntu focal/main armhf libaudit-common all 1:2.8.5-2ubuntu3 [4108 B] Get:16 http://ftpmaster.internal/ubuntu focal/main armhf libcap-ng0 armhf 0.7.9-2.1 [9692 B] Get:17 http://ftpmaster.internal/ubuntu focal/main armhf libaudit1 armhf 1:2.8.5-2ubuntu3 [36.0 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main armhf libpam0g armhf 1.3.1-5ubuntu3 [50.1 kB] Get:19 http://ftpmaster.internal/ubuntu focal/main armhf libpcre2-8-0 armhf 10.34-7 [172 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main armhf libselinux1 armhf 2.9-3 [60.7 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main armhf libpam-modules-bin armhf 1.3.1-5ubuntu3 [33.8 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main armhf libpam-modules armhf 1.3.1-5ubuntu3 [232 kB] Get:23 http://ftpmaster.internal/ubuntu focal/main armhf systemd-sysv armhf 243-3ubuntu1 [9364 B] Get:24 http://ftpmaster.internal/ubuntu focal/main armhf libacl1 armhf 2.2.53-5 [15.9 kB] Get:25 http://ftpmaster.internal/ubuntu focal/main armhf libapparmor1 armhf 2.13.3-5ubuntu5 [29.7 kB] Get:26 http://ftpmaster.internal/ubuntu focal/main armhf libcap2 armhf 1:2.27-1 [12.7 kB] Get:27 http://ftpmaster.internal/ubuntu focal/main armhf libudev1 armhf 243-3ubuntu1 [71.0 kB] Get:28 http://ftpmaster.internal/ubuntu focal/main armhf libdevmapper1.02.1 armhf 2:1.02.155-2ubuntu7 [118 kB] Get:29 http://ftpmaster.internal/ubuntu focal/main armhf libjson-c4 armhf 0.13.1+dfsg-6 [25.6 kB] Get:30 http://ftpmaster.internal/ubuntu focal/main armhf libcryptsetup12 armhf 2:2.2.2-1ubuntu1 [163 kB] Get:31 http://ftpmaster.internal/ubuntu focal/main armhf libnettle7 armhf 3.5.1+really3.5.1-2 [126 kB] Get:32 http://ftpmaster.internal/ubuntu focal/main armhf libhogweed5 armhf 3.5.1+really3.5.1-2 [127 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main armhf libp11-kit0 armhf 0.23.18.1-2 [166 kB] Get:34 http://ftpmaster.internal/ubuntu focal/main armhf libtasn1-6 armhf 4.15.0-2 [33.0 kB] Get:35 http://ftpmaster.internal/ubuntu focal/main armhf libgnutls30 armhf 3.6.10-5 [724 kB] Get:36 http://ftpmaster.internal/ubuntu focal/main armhf libkmod2 armhf 26-3ubuntu1 [37.0 kB] Get:37 http://ftpmaster.internal/ubuntu focal/main armhf liblz4-1 armhf 1.9.2-2 [51.7 kB] Get:38 http://ftpmaster.internal/ubuntu focal/main armhf systemd armhf 243-3ubuntu1 [3479 kB] Get:39 http://ftpmaster.internal/ubuntu focal/main armhf libsystemd0 armhf 243-3ubuntu1 [243 kB] Get:40 http://ftpmaster.internal/ubuntu focal/main armhf libisl22 armhf 0.22-2 [460 kB] Get:41 http://ftpmaster.internal/ubuntu focal/main armhf libcc1-0 armhf 9.2.1-21ubuntu1 [41.8 kB] Get:42 http://ftpmaster.internal/ubuntu focal/main armhf binutils-arm-linux-gnueabihf armhf 2.33.1-1ubuntu1 [2101 kB] Get:43 http://ftpmaster.internal/ubuntu focal/main armhf libbinutils armhf 2.33.1-1ubuntu1 [315 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main armhf binutils-common armhf 2.33.1-1ubuntu1 [203 kB] Get:45 http://ftpmaster.internal/ubuntu focal/main armhf binutils armhf 2.33.1-1ubuntu1 [3348 B] Get:46 http://ftpmaster.internal/ubuntu focal/main armhf libgomp1 armhf 9.2.1-21ubuntu1 [77.4 kB] Get:47 http://ftpmaster.internal/ubuntu focal/main armhf libatomic1 armhf 9.2.1-21ubuntu1 [7104 B] Get:48 http://ftpmaster.internal/ubuntu focal/main armhf libasan5 armhf 9.2.1-21ubuntu1 [387 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main armhf libubsan1 armhf 9.2.1-21ubuntu1 [118 kB] Get:50 http://ftpmaster.internal/ubuntu focal/main armhf gcc-9-base armhf 9.2.1-21ubuntu1 [19.0 kB] Get:51 http://ftpmaster.internal/ubuntu focal/main armhf libstdc++6 armhf 9.2.1-21ubuntu1 [451 kB] Get:52 http://ftpmaster.internal/ubuntu focal/main armhf g++-9 armhf 9.2.1-21ubuntu1 [8541 kB] Get:53 http://ftpmaster.internal/ubuntu focal/main armhf libstdc++-9-dev armhf 9.2.1-21ubuntu1 [1777 kB] Get:54 http://ftpmaster.internal/ubuntu focal/main armhf libgcc-9-dev armhf 9.2.1-21ubuntu1 [690 kB] Get:55 http://ftpmaster.internal/ubuntu focal/main armhf gcc-9 armhf 9.2.1-21ubuntu1 [8073 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main armhf cpp-9 armhf 9.2.1-21ubuntu1 [7470 kB] Get:57 http://ftpmaster.internal/ubuntu focal/main armhf libgcc1 armhf 1:9.2.1-21ubuntu1 [37.4 kB] Get:58 http://ftpmaster.internal/ubuntu focal/main armhf libattr1 armhf 1:2.4.48-5 [11.5 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main armhf libdebconfclient0 armhf 0.250ubuntu1 [5820 B] Get:60 http://ftpmaster.internal/ubuntu focal/main armhf libgcrypt20 armhf 1.8.5-3ubuntu1 [364 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main armhf libncurses6 armhf 6.1+20191019-1ubuntu1 [79.7 kB] Get:62 http://ftpmaster.internal/ubuntu focal/main armhf libtinfo6 armhf 6.1+20191019-1ubuntu1 [72.8 kB] Get:63 http://ftpmaster.internal/ubuntu focal/main armhf libncursesw6 armhf 6.1+20191019-1ubuntu1 [106 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main armhf libpam-runtime all 1.3.1-5ubuntu3 [37.3 kB] Get:65 http://ftpmaster.internal/ubuntu focal/main armhf libsemanage-common all 2.9-3build1 [9736 B] Get:66 http://ftpmaster.internal/ubuntu focal/main armhf libsemanage1 armhf 2.9-3build1 [73.7 kB] Get:67 http://ftpmaster.internal/ubuntu focal/main armhf libzstd1 armhf 1.4.4+dfsg-1 [207 kB] Get:68 http://ftpmaster.internal/ubuntu focal/main armhf gpgv armhf 2.2.17-3ubuntu1 [170 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main armhf sensible-utils all 0.0.12+nmu1 [15.0 kB] Get:70 http://ftpmaster.internal/ubuntu focal/main armhf libsqlite3-0 armhf 3.30.1-1ubuntu1 [460 kB] Get:71 http://ftpmaster.internal/ubuntu focal/main armhf gpg armhf 2.2.17-3ubuntu1 [421 kB] Get:72 http://ftpmaster.internal/ubuntu focal/main armhf gpgconf armhf 2.2.17-3ubuntu1 [107 kB] Get:73 http://ftpmaster.internal/ubuntu focal/main armhf gpg-agent armhf 2.2.17-3ubuntu1 [195 kB] Get:74 http://ftpmaster.internal/ubuntu focal/main armhf liblockfile-bin armhf 1.16-1.1 [10.5 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main armhf liblockfile1 armhf 1.16-1.1 [5620 B] Get:76 http://ftpmaster.internal/ubuntu focal/main armhf linux-libc-dev armhf 5.3.0-24.26 [1079 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 48.9 MB in 2s (32.3 MB/s) (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../base-files_11ubuntu2_armhf.deb ... Unpacking base-files (11ubuntu2) over (10.2ubuntu7) ... Setting up base-files (11ubuntu2) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... Installing new version of config file /etc/update-motd.d/50-motd-news ... Updating /root/.profile to current default. (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../debianutils_4.9.1_armhf.deb ... Unpacking debianutils (4.9.1) over (4.8.6.3) ... Setting up debianutils (4.9.1) ... (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../bash_5.0-5ubuntu1_armhf.deb ... Unpacking bash (5.0-5ubuntu1) over (5.0-4ubuntu1) ... Setting up bash (5.0-5ubuntu1) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../hostname_3.23_armhf.deb ... Unpacking hostname (3.23) over (3.22) ... Setting up hostname (3.23) ... (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.1+20191019-1ubuntu1_armhf.deb ... Unpacking ncurses-bin (6.1+20191019-1ubuntu1) over (6.1+20190803-1ubuntu1) ... Setting up ncurses-bin (6.1+20191019-1ubuntu1) ... (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../perl_5.30.0-9_armhf.deb ... Unpacking perl (5.30.0-9) over (5.28.1-6build1) ... Replacing files in old package perl-base (5.28.1-6build1) ... Selecting previously unselected package perl-modules-5.30. Preparing to unpack .../perl-modules-5.30_5.30.0-9_all.deb ... Unpacking perl-modules-5.30 (5.30.0-9) ... Selecting previously unselected package libperl5.30:armhf. Preparing to unpack .../libperl5.30_5.30.0-9_armhf.deb ... Unpacking libperl5.30:armhf (5.30.0-9) ... Preparing to unpack .../perl-base_5.30.0-9_armhf.deb ... Unpacking perl-base (5.30.0-9) over (5.28.1-6build1) ... Setting up perl-base (5.30.0-9) ... (Reading database ... 14388 files and directories currently installed.) Preparing to unpack .../bzip2_1.0.8-2_armhf.deb ... Unpacking bzip2 (1.0.8-2) over (1.0.6-9.2) ... Preparing to unpack .../libbz2-1.0_1.0.8-2_armhf.deb ... Unpacking libbz2-1.0:armhf (1.0.8-2) over (1.0.6-9.2) ... Setting up libbz2-1.0:armhf (1.0.8-2) ... (Reading database ... 14388 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.1+20191019-1ubuntu1_all.deb ... Unpacking ncurses-base (6.1+20191019-1ubuntu1) over (6.1+20190803-1ubuntu1) ... Setting up ncurses-base (6.1+20191019-1ubuntu1) ... (Reading database ... 14388 files and directories currently installed.) Preparing to unpack .../lsb-base_11.1.0ubuntu1_all.deb ... Unpacking lsb-base (11.1.0ubuntu1) over (11.0.1ubuntu1) ... Setting up lsb-base (11.1.0ubuntu1) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../sysvinit-utils_2.96-1ubuntu1_armhf.deb ... Unpacking sysvinit-utils (2.96-1ubuntu1) over (2.95-5ubuntu2) ... Setting up sysvinit-utils (2.96-1ubuntu1) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a2.8.5-2ubuntu3_all.deb ... Unpacking libaudit-common (1:2.8.5-2ubuntu3) over (1:2.8.5-2ubuntu1) ... Setting up libaudit-common (1:2.8.5-2ubuntu3) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.7.9-2.1_armhf.deb ... Unpacking libcap-ng0:armhf (0.7.9-2.1) over (0.7.9-2) ... Setting up libcap-ng0:armhf (0.7.9-2.1) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.8.5-2ubuntu3_armhf.deb ... Unpacking libaudit1:armhf (1:2.8.5-2ubuntu3) over (1:2.8.5-2ubuntu1) ... Setting up libaudit1:armhf (1:2.8.5-2ubuntu3) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libpam0g_1.3.1-5ubuntu3_armhf.deb ... Unpacking libpam0g:armhf (1.3.1-5ubuntu3) over (1.3.1-5ubuntu1) ... Setting up libpam0g:armhf (1.3.1-5ubuntu3) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.34-7_armhf.deb ... Unpacking libpcre2-8-0:armhf (10.34-7) over (10.32-5) ... Setting up libpcre2-8-0:armhf (10.34-7) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libselinux1_2.9-3_armhf.deb ... Unpacking libselinux1:armhf (2.9-3) over (2.9-2) ... Setting up libselinux1:armhf (2.9-3) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.3.1-5ubuntu3_armhf.deb ... Unpacking libpam-modules-bin (1.3.1-5ubuntu3) over (1.3.1-5ubuntu1) ... Setting up libpam-modules-bin (1.3.1-5ubuntu3) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.3.1-5ubuntu3_armhf.deb ... Unpacking libpam-modules:armhf (1.3.1-5ubuntu3) over (1.3.1-5ubuntu1) ... Setting up libpam-modules:armhf (1.3.1-5ubuntu3) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../systemd-sysv_243-3ubuntu1_armhf.deb ... Unpacking systemd-sysv (243-3ubuntu1) over (242-7ubuntu3) ... Preparing to unpack .../libacl1_2.2.53-5_armhf.deb ... Unpacking libacl1:armhf (2.2.53-5) over (2.2.53-4) ... Setting up libacl1:armhf (2.2.53-5) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libapparmor1_2.13.3-5ubuntu5_armhf.deb ... Unpacking libapparmor1:armhf (2.13.3-5ubuntu5) over (2.13.3-5ubuntu1) ... Preparing to unpack .../libcap2_1%3a2.27-1_armhf.deb ... Unpacking libcap2:armhf (1:2.27-1) over (1:2.25-2) ... Preparing to unpack .../libudev1_243-3ubuntu1_armhf.deb ... Unpacking libudev1:armhf (243-3ubuntu1) over (242-7ubuntu3) ... Setting up libudev1:armhf (243-3ubuntu1) ... (Reading database ... 14387 files and directories currently installed.) Preparing to unpack .../libdevmapper1.02.1_2%3a1.02.155-2ubuntu7_armhf.deb ... Unpacking libdevmapper1.02.1:armhf (2:1.02.155-2ubuntu7) over (2:1.02.155-2ubuntu6) ... Preparing to unpack .../libjson-c4_0.13.1+dfsg-6_armhf.deb ... Unpacking libjson-c4:armhf (0.13.1+dfsg-6) over (0.13.1+dfsg-4) ... Preparing to unpack .../libcryptsetup12_2%3a2.2.2-1ubuntu1_armhf.deb ... Unpacking libcryptsetup12:armhf (2:2.2.2-1ubuntu1) over (2:2.2.0-3ubuntu1) ... Selecting previously unselected package libnettle7:armhf. Preparing to unpack .../libnettle7_3.5.1+really3.5.1-2_armhf.deb ... Unpacking libnettle7:armhf (3.5.1+really3.5.1-2) ... Setting up libnettle7:armhf (3.5.1+really3.5.1-2) ... Selecting previously unselected package libhogweed5:armhf. (Reading database ... 14394 files and directories currently installed.) Preparing to unpack .../libhogweed5_3.5.1+really3.5.1-2_armhf.deb ... Unpacking libhogweed5:armhf (3.5.1+really3.5.1-2) ... Setting up libhogweed5:armhf (3.5.1+really3.5.1-2) ... (Reading database ... 14397 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.23.18.1-2_armhf.deb ... Unpacking libp11-kit0:armhf (0.23.18.1-2) over (0.23.17-2) ... Setting up libp11-kit0:armhf (0.23.18.1-2) ... (Reading database ... 14397 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.15.0-2_armhf.deb ... Unpacking libtasn1-6:armhf (4.15.0-2) over (4.14-3) ... Setting up libtasn1-6:armhf (4.15.0-2) ... (Reading database ... 14397 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.6.10-5_armhf.deb ... Unpacking libgnutls30:armhf (3.6.10-5) over (3.6.9-5ubuntu1) ... Setting up libgnutls30:armhf (3.6.10-5) ... (Reading database ... 14396 files and directories currently installed.) Preparing to unpack .../libkmod2_26-3ubuntu1_armhf.deb ... Unpacking libkmod2:armhf (26-3ubuntu1) over (26-1ubuntu1) ... Preparing to unpack .../liblz4-1_1.9.2-2_armhf.deb ... Unpacking liblz4-1:armhf (1.9.2-2) over (1.9.1-1) ... Setting up liblz4-1:armhf (1.9.2-2) ... (Reading database ... 14396 files and directories currently installed.) Preparing to unpack .../systemd_243-3ubuntu1_armhf.deb ... Unpacking systemd (243-3ubuntu1) over (242-7ubuntu3) ... Preparing to unpack .../libsystemd0_243-3ubuntu1_armhf.deb ... Unpacking libsystemd0:armhf (243-3ubuntu1) over (242-7ubuntu3) ... Setting up libsystemd0:armhf (243-3ubuntu1) ... Selecting previously unselected package libisl22:armhf. (Reading database ... 14414 files and directories currently installed.) Preparing to unpack .../00-libisl22_0.22-2_armhf.deb ... Unpacking libisl22:armhf (0.22-2) ... Preparing to unpack .../01-libcc1-0_9.2.1-21ubuntu1_armhf.deb ... Unpacking libcc1-0:armhf (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../02-binutils-arm-linux-gnueabihf_2.33.1-1ubuntu1_armhf.deb ... Unpacking binutils-arm-linux-gnueabihf (2.33.1-1ubuntu1) over (2.33-2ubuntu1) ... Preparing to unpack .../03-libbinutils_2.33.1-1ubuntu1_armhf.deb ... Unpacking libbinutils:armhf (2.33.1-1ubuntu1) over (2.33-2ubuntu1) ... Preparing to unpack .../04-binutils-common_2.33.1-1ubuntu1_armhf.deb ... Unpacking binutils-common:armhf (2.33.1-1ubuntu1) over (2.33-2ubuntu1) ... Preparing to unpack .../05-binutils_2.33.1-1ubuntu1_armhf.deb ... Unpacking binutils (2.33.1-1ubuntu1) over (2.33-2ubuntu1) ... Preparing to unpack .../06-libgomp1_9.2.1-21ubuntu1_armhf.deb ... Unpacking libgomp1:armhf (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../07-libatomic1_9.2.1-21ubuntu1_armhf.deb ... Unpacking libatomic1:armhf (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../08-libasan5_9.2.1-21ubuntu1_armhf.deb ... Unpacking libasan5:armhf (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../09-libubsan1_9.2.1-21ubuntu1_armhf.deb ... Unpacking libubsan1:armhf (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../10-gcc-9-base_9.2.1-21ubuntu1_armhf.deb ... Unpacking gcc-9-base:armhf (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Setting up gcc-9-base:armhf (9.2.1-21ubuntu1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libstdc++6_9.2.1-21ubuntu1_armhf.deb ... Unpacking libstdc++6:armhf (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Setting up libstdc++6:armhf (9.2.1-21ubuntu1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../0-g++-9_9.2.1-21ubuntu1_armhf.deb ... Unpacking g++-9 (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../1-libstdc++-9-dev_9.2.1-21ubuntu1_armhf.deb ... Unpacking libstdc++-9-dev:armhf (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../2-libgcc-9-dev_9.2.1-21ubuntu1_armhf.deb ... Unpacking libgcc-9-dev:armhf (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../3-gcc-9_9.2.1-21ubuntu1_armhf.deb ... Unpacking gcc-9 (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../4-cpp-9_9.2.1-21ubuntu1_armhf.deb ... Unpacking cpp-9 (9.2.1-21ubuntu1) over (9.2.1-9ubuntu2) ... Preparing to unpack .../5-libgcc1_1%3a9.2.1-21ubuntu1_armhf.deb ... Unpacking libgcc1:armhf (1:9.2.1-21ubuntu1) over (1:9.2.1-9ubuntu2) ... Setting up libgcc1:armhf (1:9.2.1-21ubuntu1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libattr1_1%3a2.4.48-5_armhf.deb ... Unpacking libattr1:armhf (1:2.4.48-5) over (1:2.4.48-4) ... Setting up libattr1:armhf (1:2.4.48-5) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.250ubuntu1_armhf.deb ... Unpacking libdebconfclient0:armhf (0.250ubuntu1) over (0.249ubuntu1) ... Setting up libdebconfclient0:armhf (0.250ubuntu1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.8.5-3ubuntu1_armhf.deb ... Unpacking libgcrypt20:armhf (1.8.5-3ubuntu1) over (1.8.4-5ubuntu2) ... Setting up libgcrypt20:armhf (1.8.5-3ubuntu1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libncurses6_6.1+20191019-1ubuntu1_armhf.deb ... Unpacking libncurses6:armhf (6.1+20191019-1ubuntu1) over (6.1+20190803-1ubuntu1) ... Preparing to unpack .../libtinfo6_6.1+20191019-1ubuntu1_armhf.deb ... Unpacking libtinfo6:armhf (6.1+20191019-1ubuntu1) over (6.1+20190803-1ubuntu1) ... Setting up libtinfo6:armhf (6.1+20191019-1ubuntu1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libncursesw6_6.1+20191019-1ubuntu1_armhf.deb ... Unpacking libncursesw6:armhf (6.1+20191019-1ubuntu1) over (6.1+20190803-1ubuntu1) ... Setting up libncursesw6:armhf (6.1+20191019-1ubuntu1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libpam-runtime_1.3.1-5ubuntu3_all.deb ... Unpacking libpam-runtime (1.3.1-5ubuntu3) over (1.3.1-5ubuntu1) ... Setting up libpam-runtime (1.3.1-5ubuntu3) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libsemanage-common_2.9-3build1_all.deb ... Unpacking libsemanage-common (2.9-3build1) over (2.9-3) ... Setting up libsemanage-common (2.9-3build1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libsemanage1_2.9-3build1_armhf.deb ... Unpacking libsemanage1:armhf (2.9-3build1) over (2.9-3) ... Setting up libsemanage1:armhf (2.9-3build1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libzstd1_1.4.4+dfsg-1_armhf.deb ... Unpacking libzstd1:armhf (1.4.4+dfsg-1) over (1.4.3+dfsg-1) ... Setting up libzstd1:armhf (1.4.4+dfsg-1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../gpgv_2.2.17-3ubuntu1_armhf.deb ... Unpacking gpgv (2.2.17-3ubuntu1) over (2.2.12-1ubuntu3) ... Setting up gpgv (2.2.17-3ubuntu1) ... (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../0-sensible-utils_0.0.12+nmu1_all.deb ... Unpacking sensible-utils (0.0.12+nmu1) over (0.0.12) ... Preparing to unpack .../1-libsqlite3-0_3.30.1-1ubuntu1_armhf.deb ... Unpacking libsqlite3-0:armhf (3.30.1-1ubuntu1) over (3.29.0-2) ... Preparing to unpack .../2-gpg_2.2.17-3ubuntu1_armhf.deb ... Unpacking gpg (2.2.17-3ubuntu1) over (2.2.12-1ubuntu3) ... Preparing to unpack .../3-gpgconf_2.2.17-3ubuntu1_armhf.deb ... Unpacking gpgconf (2.2.17-3ubuntu1) over (2.2.12-1ubuntu3) ... Preparing to unpack .../4-gpg-agent_2.2.17-3ubuntu1_armhf.deb ... Unpacking gpg-agent (2.2.17-3ubuntu1) over (2.2.12-1ubuntu3) ... Preparing to unpack .../5-liblockfile-bin_1.16-1.1_armhf.deb ... Unpacking liblockfile-bin (1.16-1.1) over (1.15-1) ... Preparing to unpack .../6-liblockfile1_1.16-1.1_armhf.deb ... Unpacking liblockfile1:armhf (1.16-1.1) over (1.15-1) ... Preparing to unpack .../7-linux-libc-dev_5.3.0-24.26_armhf.deb ... Unpacking linux-libc-dev:armhf (5.3.0-24.26) over (5.3.0-18.19) ... Setting up libapparmor1:armhf (2.13.3-5ubuntu5) ... Setting up liblockfile-bin (1.16-1.1) ... Setting up perl-modules-5.30 (5.30.0-9) ... Setting up libsqlite3-0:armhf (3.30.1-1ubuntu1) ... Setting up binutils-common:armhf (2.33.1-1ubuntu1) ... Setting up linux-libc-dev:armhf (5.3.0-24.26) ... Setting up libgomp1:armhf (9.2.1-21ubuntu1) ... Setting up bzip2 (1.0.8-2) ... Setting up libcap2:armhf (1:2.27-1) ... Setting up libasan5:armhf (9.2.1-21ubuntu1) ... Setting up libncurses6:armhf (6.1+20191019-1ubuntu1) ... Setting up libatomic1:armhf (9.2.1-21ubuntu1) ... Setting up libubsan1:armhf (9.2.1-21ubuntu1) ... Setting up libdevmapper1.02.1:armhf (2:1.02.155-2ubuntu7) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up gpgconf (2.2.17-3ubuntu1) ... Setting up libperl5.30:armhf (5.30.0-9) ... Setting up libisl22:armhf (0.22-2) ... Setting up liblockfile1:armhf (1.16-1.1) ... Setting up libjson-c4:armhf (0.13.1+dfsg-6) ... Setting up libbinutils:armhf (2.33.1-1ubuntu1) ... Setting up binutils-arm-linux-gnueabihf (2.33.1-1ubuntu1) ... Setting up libcc1-0:armhf (9.2.1-21ubuntu1) ... Setting up gpg (2.2.17-3ubuntu1) ... Setting up libkmod2:armhf (26-3ubuntu1) ... Setting up gpg-agent (2.2.17-3ubuntu1) ... Installing new version of config file /etc/logcheck/ignore.d.server/gpg-agent ... Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket -> /usr/lib/systemd/user/gpg-agent-browser.socket. Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket -> /usr/lib/systemd/user/gpg-agent-extra.socket. Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket -> /usr/lib/systemd/user/gpg-agent-ssh.socket. Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent.socket -> /usr/lib/systemd/user/gpg-agent.socket. Setting up binutils (2.33.1-1ubuntu1) ... Setting up libgcc-9-dev:armhf (9.2.1-21ubuntu1) ... Setting up perl (5.30.0-9) ... Setting up cpp-9 (9.2.1-21ubuntu1) ... Setting up libcryptsetup12:armhf (2:2.2.2-1ubuntu1) ... Setting up gcc-9 (9.2.1-21ubuntu1) ... Setting up libstdc++-9-dev:armhf (9.2.1-21ubuntu1) ... Setting up systemd (243-3ubuntu1) ... Installing new version of config file /etc/dhcp/dhclient-enter-hooks.d/resolved ... Installing new version of config file /etc/systemd/networkd.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... Initializing machine ID from KVM UUID. Setting up g++-9 (9.2.1-21ubuntu1) ... Setting up systemd-sysv (243-3ubuntu1) ... Processing triggers for libc-bin (2.30-0ubuntu2) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-18226031 armhf focal -c chroot:build-PACKAGEBUILD-18226031 --arch=armhf --dist=focal --nolog rdkit_201903.1-2ubuntu1.dsc Initiating build PACKAGEBUILD-18226031 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-170-generic #199-Ubuntu SMP Thu Nov 14 01:46:18 UTC 2019 armv7l sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-arm64-077.buildd +==============================================================================+ | rdkit 201903.1-2ubuntu1 (armhf) 09 Dec 2019 20:14 | +==============================================================================+ Package: rdkit Version: 201903.1-2ubuntu1 Source Version: 201903.1-2ubuntu1 Distribution: focal Machine Architecture: arm64 Host Architecture: armhf Build Architecture: armhf I: NOTICE: Log filtering will replace 'build/rdkit-aDOYte/rdkit-201903.1' with '<>' I: NOTICE: Log filtering will replace 'build/rdkit-aDOYte' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-18226031/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- rdkit_201903.1-2ubuntu1.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-8pI7nM/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-8pI7nM/apt_archive ./ InRelease Get:2 copy:/<>/resolver-8pI7nM/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-8pI7nM/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-8pI7nM/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-8pI7nM/apt_archive ./ Packages [526 B] Fetched 2859 B in 0s (114 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libhogweed4 libisl21 libnettle6 libperl5.28 perl-modules-5.28 Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-8pI7nM/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: bison, cmake, debhelper (>> 9), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libschroedinger-coordgenlibs-dev (>= 1.1-4), libschroedinger-maeparser-dev (>= 1.2-1), librsvg2-bin, libsqlite3-dev, pandoc, postgresql-server-dev-all, python3-dev, python3-numpy, python3-pandas, python3-pil | python3-imaging, python3-recommonmark, python3-sphinx, rapidjson-dev, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended Filtered Build-Depends: bison, cmake, debhelper (>> 9), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libschroedinger-coordgenlibs-dev (>= 1.1-4), libschroedinger-maeparser-dev (>= 1.2-1), librsvg2-bin, libsqlite3-dev, pandoc, postgresql-server-dev-all, python3-dev, python3-numpy, python3-pandas, python3-pil | python3-imaging, python3-recommonmark, python3-sphinx, rapidjson-dev, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended dpkg-deb: building package 'sbuild-build-depends-rdkit-dummy' in '/<>/resolver-knHrSK/apt_archive/sbuild-build-depends-rdkit-dummy.deb'. Ign:1 copy:/<>/resolver-knHrSK/apt_archive ./ InRelease Get:2 copy:/<>/resolver-knHrSK/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-knHrSK/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-knHrSK/apt_archive ./ Sources [437 B] Get:5 copy:/<>/resolver-knHrSK/apt_archive ./ Packages [771 B] Fetched 3327 B in 0s (130 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install rdkit build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libhogweed4 libisl21 libnettle6 libperl5.28 perl-modules-5.28 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev binfmt-support bison bsdmainutils clang-7 cmake cmake-data dctrl-tools debhelper dh-autoreconf dh-python dh-strip-nondeterminism distro-info-data docutils-common doxygen dwz file flex fontconfig fontconfig-config fonts-dejavu-core fonts-lmodern gettext gettext-base groff-base hicolor-icon-theme icu-devtools imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian latexmk libarchive-zip-perl libarchive13 libasn1-8-heimdal libblas3 libboost-atomic1.67-dev libboost-atomic1.67.0 libboost-chrono1.67-dev libboost-chrono1.67.0 libboost-date-time1.67-dev libboost-date-time1.67.0 libboost-dev libboost-iostreams-dev libboost-iostreams1.67-dev libboost-iostreams1.67.0 libboost-python-dev libboost-python1.67-dev libboost-python1.67.0 libboost-regex-dev libboost-regex1.67-dev libboost-regex1.67.0 libboost-serialization1.67-dev libboost-serialization1.67.0 libboost-system-dev libboost-system1.67-dev libboost-system1.67.0 libboost-thread-dev libboost-thread1.67-dev libboost-thread1.67.0 libboost1.67-dev libbsd0 libcairo2 libclang-common-7-dev libclang1-7 libclang1-9 libcroco3 libcurl4 libdatrie1 libdebhelper-perl libedit2 libelf1 libexpat1 libexpat1-dev libffi-dev libfftw3-double3 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgc1c2 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgfortran5 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libharfbuzz-icu0 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu-dev libicu63 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libjsoncpp1 libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common libllvm7 libllvm9 liblqr-1-0 libltdl7 libmagic-mgc libmagic1 libmagickcore-6.q16-6 libmagickwand-6.q16-6 libmpdec2 libncurses-dev libnghttp2-14 libobjc-9-dev libobjc4 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpipeline1 libpixman-1-0 libpq-dev libpq5 libpsl5 libptexenc1 libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-dev libpython3-stdlib libpython3.7 libpython3.7-dev libpython3.7-minimal libpython3.7-stdlib libpython3.8-minimal libpython3.8-stdlib librhash0 libroken18-heimdal librsvg2-2 librsvg2-bin librtmp1 libsasl2-2 libsasl2-modules-db libschroedinger-coordgenlibs-dev libschroedinger-coordgenlibs1 libschroedinger-maeparser-dev libschroedinger-maeparser1 libsigsegv2 libsm6 libsqlite3-dev libssh-4 libsub-override-perl libsynctex2 libteckit0 libtexlua53 libtexluajit2 libthai-data libthai0 libtiff5 libtinfo-dev libtool libuchardet0 libuv1 libwebp6 libwebpdemux2 libwebpmux3 libwind0-heimdal libx11-6 libx11-data libxapian30 libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxpm4 libxrender1 libxt6 libzzip-0-13 llvm-7 llvm-7-dev llvm-7-runtime lsb-release m4 man-db mime-support netbase pandoc pandoc-data po-debconf postgresql-client-common postgresql-common postgresql-server-dev-11 postgresql-server-dev-all preview-latex-style python python-babel-localedata python-dev python-minimal python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-alabaster python3-attr python3-babel python3-certifi python3-chardet python3-commonmark-bkrs python3-dateutil python3-dev python3-distutils python3-docutils python3-idna python3-imagesize python3-jinja2 python3-lib2to3 python3-markupsafe python3-minimal python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-pygments python3-pyparsing python3-recommonmark python3-requests python3-roman python3-six python3-sphinx python3-tz python3-urllib3 python3.7 python3.7-dev python3.7-minimal python3.8 python3.8-minimal rapidjson-dev sgml-base shared-mime-info sphinx-common ssl-cert t1utils tex-common texlive-base texlive-binaries texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures ucf x11-common xdg-utils xml-core zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc bison-doc wamerican | wordlist whois vacation clang-7-doc cmake-doc ninja-build debtags dh-make doxygen-latex doxygen-doc doxygen-gui graphviz flex-doc gettext-doc libasprintf-dev libgettextpo-dev groff imagemagick-doc autotrace cups-bsd | lpr | lprng curl enscript ffmpeg gimp gnuplot grads hp2xx html2ps libwmf-bin mplayer povray radiance sane-utils transfig ufraw-batch ghostscript lrzip libboost-doc libboost1.67-doc gccxml libboost-container1.67-dev libboost-context1.67-dev libboost-contract1.67-dev libboost-coroutine1.67-dev libboost-exception1.67-dev libboost-fiber1.67-dev libboost-filesystem1.67-dev libboost-graph1.67-dev libboost-graph-parallel1.67-dev libboost-locale1.67-dev libboost-log1.67-dev libboost-math1.67-dev libboost-mpi1.67-dev libboost-mpi-python1.67-dev libboost-numpy1.67-dev libboost-program-options1.67-dev libboost-random1.67-dev libboost-signals1.67-dev libboost-stacktrace1.67-dev libboost-test1.67-dev libboost-timer1.67-dev libboost-type-erasure1.67-dev libboost-wave1.67-dev libboost1.67-tools-dev libmpfrc++-dev libntl-dev libfftw3-bin libfftw3-dev krb5-doc krb5-user icu-doc liblcms2-utils libmagickcore-6.q16-6-extra ncurses-doc postgresql-doc-12 sqlite3-doc libtool-doc gfortran | fortran95-compiler gcj-jdk xapian-tools llvm-7-doc m4-doc apparmor less www-browser texlive-xetex texlive-luatex pandoc-citeproc context wkhtmltopdf ghc nodejs php ruby r-base-core libjs-mathjax node-katex libmail-box-perl libjson-perl python-doc python-tk python2-doc python2.7-doc python3-doc python3-tk python3-venv python-attr-doc python-commonmark-bkrs-doc docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french python-jinja2-doc gfortran python-numpy-doc python3-pytest python3-numpy-dbg python-pandas-doc python3-statsmodels python-pil-doc python3-pil-dbg python3-setuptools python-pygments-doc ttf-bitstream-vera python-pyparsing-doc python3-cryptography python3-openssl python3-socks dvipng python3-sphinx-rtd-theme python3-stemmer sphinx-doc texlive-plain-generic python3.7-venv python3.7-doc python3.8-venv python3.8-doc sgml-base-doc openssl-blacklist gv | postscript-viewer perl-tk xpdf | pdf-viewer xzdec texlive-fonts-recommended-doc texlive-latex-base-doc python-pygments icc-profiles libfile-which-perl libspreadsheet-parseexcel-perl texlive-latex-extra-doc texlive-latex-recommended-doc texlive-pstricks dot2tex prerex ruby-tcltk | libtcltk-ruby texlive-pictures-doc vprerex Recommended packages: libomp-7-dev libfl-dev curl | wget | lynx libmagickcore-6.q16-6-extra ghostscript netpbm xpdf | pdf-viewer gv | postscript-viewer libarchive-cpio-perl libgdk-pixbuf2.0-bin libglib2.0-data xdg-user-dirs javascript-common krb5-locales gsfonts publicsuffix librsvg2-common libsasl2-modules libltdl-dev libmail-sendmail-perl logrotate python3-scipy python3-matplotlib python3-numexpr python3-tables python3-xlrd python3-openpyxl python3-xlwt python3-bs4 python3-html5lib python3-lxml python3-olefile lmodern dvisvgm tex-gyre tipa texlive-plain-generic ruby | ruby-interpreter tk libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf automake autopoint autotools-dev binfmt-support bison bsdmainutils clang-7 cmake cmake-data dctrl-tools debhelper dh-autoreconf dh-python dh-strip-nondeterminism distro-info-data docutils-common doxygen dwz file flex fontconfig fontconfig-config fonts-dejavu-core fonts-lmodern gettext gettext-base groff-base hicolor-icon-theme icu-devtools imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian latexmk libarchive-zip-perl libarchive13 libasn1-8-heimdal libblas3 libboost-atomic1.67-dev libboost-atomic1.67.0 libboost-chrono1.67-dev libboost-chrono1.67.0 libboost-date-time1.67-dev libboost-date-time1.67.0 libboost-dev libboost-iostreams-dev libboost-iostreams1.67-dev libboost-iostreams1.67.0 libboost-python-dev libboost-python1.67-dev libboost-python1.67.0 libboost-regex-dev libboost-regex1.67-dev libboost-regex1.67.0 libboost-serialization1.67-dev libboost-serialization1.67.0 libboost-system-dev libboost-system1.67-dev libboost-system1.67.0 libboost-thread-dev libboost-thread1.67-dev libboost-thread1.67.0 libboost1.67-dev libbsd0 libcairo2 libclang-common-7-dev libclang1-7 libclang1-9 libcroco3 libcurl4 libdatrie1 libdebhelper-perl libedit2 libelf1 libexpat1 libexpat1-dev libffi-dev libfftw3-double3 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgc1c2 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgfortran5 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libharfbuzz-icu0 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu-dev libicu63 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libjsoncpp1 libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common libllvm7 libllvm9 liblqr-1-0 libltdl7 libmagic-mgc libmagic1 libmagickcore-6.q16-6 libmagickwand-6.q16-6 libmpdec2 libncurses-dev libnghttp2-14 libobjc-9-dev libobjc4 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpipeline1 libpixman-1-0 libpq-dev libpq5 libpsl5 libptexenc1 libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-dev libpython3-stdlib libpython3.7 libpython3.7-dev libpython3.7-minimal libpython3.7-stdlib libpython3.8-minimal libpython3.8-stdlib librhash0 libroken18-heimdal librsvg2-2 librsvg2-bin librtmp1 libsasl2-2 libsasl2-modules-db libschroedinger-coordgenlibs-dev libschroedinger-coordgenlibs1 libschroedinger-maeparser-dev libschroedinger-maeparser1 libsigsegv2 libsm6 libsqlite3-dev libssh-4 libsub-override-perl libsynctex2 libteckit0 libtexlua53 libtexluajit2 libthai-data libthai0 libtiff5 libtinfo-dev libtool libuchardet0 libuv1 libwebp6 libwebpdemux2 libwebpmux3 libwind0-heimdal libx11-6 libx11-data libxapian30 libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxpm4 libxrender1 libxt6 libzzip-0-13 llvm-7 llvm-7-dev llvm-7-runtime lsb-release m4 man-db mime-support netbase pandoc pandoc-data po-debconf postgresql-client-common postgresql-common postgresql-server-dev-11 postgresql-server-dev-all preview-latex-style python python-babel-localedata python-dev python-minimal python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-alabaster python3-attr python3-babel python3-certifi python3-chardet python3-commonmark-bkrs python3-dateutil python3-dev python3-distutils python3-docutils python3-idna python3-imagesize python3-jinja2 python3-lib2to3 python3-markupsafe python3-minimal python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pkg-resources python3-pygments python3-pyparsing python3-recommonmark python3-requests python3-roman python3-six python3-sphinx python3-tz python3-urllib3 python3.7 python3.7-dev python3.7-minimal python3.8 python3.8-minimal rapidjson-dev sbuild-build-depends-rdkit-dummy sgml-base shared-mime-info sphinx-common ssl-cert t1utils tex-common texlive-base texlive-binaries texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures ucf x11-common xdg-utils xml-core zlib1g-dev 0 upgraded, 289 newly installed, 0 to remove and 0 not upgraded. Need to get 264 MB of archives. After this operation, 1334 MB of additional disk space will be used. Get:1 copy:/<>/resolver-knHrSK/apt_archive ./ sbuild-build-depends-rdkit-dummy 0.invalid.0 [1092 B] Get:2 http://ftpmaster.internal/ubuntu focal/main armhf libpython3.7-minimal armhf 3.7.5-2 [539 kB] Get:3 http://ftpmaster.internal/ubuntu focal/main armhf libexpat1 armhf 2.2.9-1 [53.2 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main armhf python3.7-minimal armhf 3.7.5-2 [1469 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main armhf python3-minimal armhf 3.7.5-1ubuntu1 [23.3 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main armhf mime-support all 3.64ubuntu1 [30.6 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main armhf libmpdec2 armhf 2.4.2-2 [66.4 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main armhf libpython3.7-stdlib armhf 3.7.5-2 [1664 kB] Get:9 http://ftpmaster.internal/ubuntu focal/main armhf python3.7 armhf 3.7.5-2 [301 kB] Get:10 http://ftpmaster.internal/ubuntu focal/main armhf libpython3-stdlib armhf 3.7.5-1ubuntu1 [6844 B] Get:11 http://ftpmaster.internal/ubuntu focal/main armhf python3 armhf 3.7.5-1ubuntu1 [47.2 kB] Get:12 http://ftpmaster.internal/ubuntu focal/main armhf libbsd0 armhf 0.10.0-1 [49.8 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main armhf bsdmainutils armhf 11.1.2ubuntu2 [176 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main armhf libuchardet0 armhf 0.0.6-3 [62.1 kB] Get:15 http://ftpmaster.internal/ubuntu focal/main armhf groff-base armhf 1.22.4-3 [772 kB] Get:16 http://ftpmaster.internal/ubuntu focal/main armhf libpipeline1 armhf 1.5.1-2 [21.6 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main armhf man-db armhf 2.9.0-1 [1079 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main armhf libsigsegv2 armhf 2.12-2 [13.1 kB] Get:19 http://ftpmaster.internal/ubuntu focal/main armhf m4 armhf 1.4.18-4 [187 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main armhf flex armhf 2.6.4-6.2 [298 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main armhf libfftw3-double3 armhf 3.3.8-2ubuntu1 [427 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main armhf libfreetype6 armhf 2.10.1-2 [283 kB] Get:23 http://ftpmaster.internal/ubuntu focal/main armhf ucf all 3.0038+nmu1 [51.6 kB] Get:24 http://ftpmaster.internal/ubuntu focal/main armhf fonts-dejavu-core all 2.37-1 [1041 kB] Get:25 http://ftpmaster.internal/ubuntu focal/main armhf fontconfig-config all 2.13.1-2ubuntu2 [28.9 kB] Get:26 http://ftpmaster.internal/ubuntu focal/main armhf libfontconfig1 armhf 2.13.1-2ubuntu2 [95.8 kB] Get:27 http://ftpmaster.internal/ubuntu focal/main armhf libjbig0 armhf 2.1-3.1build1 [23.9 kB] Get:28 http://ftpmaster.internal/ubuntu focal/main armhf libjpeg-turbo8 armhf 2.0.3-0ubuntu1 [90.4 kB] Get:29 http://ftpmaster.internal/ubuntu focal/main armhf libjpeg8 armhf 8c-2ubuntu8 [2202 B] Get:30 http://ftpmaster.internal/ubuntu focal/main armhf liblcms2-2 armhf 2.9-4 [115 kB] Get:31 http://ftpmaster.internal/ubuntu focal/main armhf libglib2.0-0 armhf 2.63.1-2 [1107 kB] Get:32 http://ftpmaster.internal/ubuntu focal/universe armhf liblqr-1-0 armhf 0.4.2-2.1 [22.2 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main armhf libltdl7 armhf 2.4.6-11 [35.2 kB] Get:34 http://ftpmaster.internal/ubuntu focal/main armhf libwebp6 armhf 0.6.1-2 [152 kB] Get:35 http://ftpmaster.internal/ubuntu focal/main armhf libtiff5 armhf 4.1.0+git191117-1 [143 kB] Get:36 http://ftpmaster.internal/ubuntu focal/main armhf libwebpmux3 armhf 0.6.1-2 [16.0 kB] Get:37 http://ftpmaster.internal/ubuntu focal/main armhf libxau6 armhf 1:1.0.9-0ubuntu1 [6612 B] Get:38 http://ftpmaster.internal/ubuntu focal/main armhf libxdmcp6 armhf 1:1.1.3-0ubuntu1 [9160 B] Get:39 http://ftpmaster.internal/ubuntu focal/main armhf libxcb1 armhf 1.13.1-2 [40.8 kB] Get:40 http://ftpmaster.internal/ubuntu focal/main armhf libx11-data all 2:1.6.8-1 [113 kB] Get:41 http://ftpmaster.internal/ubuntu focal/main armhf libx11-6 armhf 2:1.6.8-1 [517 kB] Get:42 http://ftpmaster.internal/ubuntu focal/main armhf libxext6 armhf 2:1.3.4-0ubuntu1 [24.2 kB] Get:43 http://ftpmaster.internal/ubuntu focal/main armhf libicu63 armhf 63.2-2 [8002 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main armhf libxml2 armhf 2.9.4+dfsg1-7ubuntu5 [554 kB] Get:45 http://ftpmaster.internal/ubuntu focal/universe armhf imagemagick-6-common all 8:6.9.10.23+dfsg-2.1ubuntu10 [60.9 kB] Get:46 http://ftpmaster.internal/ubuntu focal/universe armhf libmagickcore-6.q16-6 armhf 8:6.9.10.23+dfsg-2.1ubuntu10 [1516 kB] Get:47 http://ftpmaster.internal/ubuntu focal/universe armhf libmagickwand-6.q16-6 armhf 8:6.9.10.23+dfsg-2.1ubuntu10 [298 kB] Get:48 http://ftpmaster.internal/ubuntu focal/universe armhf libpython2.7-minimal armhf 2.7.17-1 [335 kB] Get:49 http://ftpmaster.internal/ubuntu focal/universe armhf python2.7-minimal armhf 2.7.17-1 [1088 kB] Get:50 http://ftpmaster.internal/ubuntu focal/universe armhf python2-minimal armhf 2.7.17-1 [27.8 kB] Get:51 http://ftpmaster.internal/ubuntu focal/universe armhf python-minimal armhf 2.7.17-1 [5996 B] Get:52 http://ftpmaster.internal/ubuntu focal/universe armhf libpython2.7-stdlib armhf 2.7.17-1 [1812 kB] Get:53 http://ftpmaster.internal/ubuntu focal/universe armhf python2.7 armhf 2.7.17-1 [248 kB] Get:54 http://ftpmaster.internal/ubuntu focal/universe armhf libpython2-stdlib armhf 2.7.17-1 [7400 B] Get:55 http://ftpmaster.internal/ubuntu focal/universe armhf libpython-stdlib armhf 2.7.17-1 [5836 B] Get:56 http://ftpmaster.internal/ubuntu focal/universe armhf python2 armhf 2.7.17-1 [26.5 kB] Get:57 http://ftpmaster.internal/ubuntu focal/universe armhf python armhf 2.7.17-1 [7836 B] Get:58 http://ftpmaster.internal/ubuntu focal/main armhf libpython3.8-minimal armhf 3.8.0-5 [696 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main armhf python3.8-minimal armhf 3.8.0-5 [1578 kB] Get:60 http://ftpmaster.internal/ubuntu focal/main armhf sgml-base all 1.29.1 [12.4 kB] Get:61 http://ftpmaster.internal/ubuntu focal/universe armhf tex-common all 6.13 [32.7 kB] Get:62 http://ftpmaster.internal/ubuntu focal/main armhf distro-info-data all 0.40ubuntu3 [4616 B] Get:63 http://ftpmaster.internal/ubuntu focal/main armhf libmagic-mgc armhf 1:5.37-6 [209 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main armhf libmagic1 armhf 1:5.37-6 [67.7 kB] Get:65 http://ftpmaster.internal/ubuntu focal/main armhf file armhf 1:5.37-6 [22.2 kB] Get:66 http://ftpmaster.internal/ubuntu focal/main armhf libelf1 armhf 0.176-1.1 [40.9 kB] Get:67 http://ftpmaster.internal/ubuntu focal/main armhf libfribidi0 armhf 1.0.7-1.1 [21.7 kB] Get:68 http://ftpmaster.internal/ubuntu focal/main armhf lsb-release all 11.1.0ubuntu1 [10.7 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main armhf netbase all 5.6 [13.0 kB] Get:70 http://ftpmaster.internal/ubuntu focal/main armhf python3-pkg-resources all 41.4.0-1 [100 kB] Get:71 http://ftpmaster.internal/ubuntu focal/main armhf python3-six all 1.12.0-2build1 [11.7 kB] Get:72 http://ftpmaster.internal/ubuntu focal/main armhf shared-mime-info armhf 1.10-1 [426 kB] Get:73 http://ftpmaster.internal/ubuntu focal/main armhf gettext-base armhf 0.19.8.1-10 [46.2 kB] Get:74 http://ftpmaster.internal/ubuntu focal/main armhf libedit2 armhf 3.1-20191025-1 [71.6 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main armhf libkrb5support0 armhf 1.17-6 [28.5 kB] Get:76 http://ftpmaster.internal/ubuntu focal/main armhf libk5crypto3 armhf 1.17-6 [78.9 kB] Get:77 http://ftpmaster.internal/ubuntu focal/main armhf libkeyutils1 armhf 1.6-6ubuntu1 [9172 B] Get:78 http://ftpmaster.internal/ubuntu focal/main armhf libkrb5-3 armhf 1.17-6 [287 kB] Get:79 http://ftpmaster.internal/ubuntu focal/main armhf libgssapi-krb5-2 armhf 1.17-6 [101 kB] Get:80 http://ftpmaster.internal/ubuntu focal/main armhf libpsl5 armhf 0.20.2-2 [48.7 kB] Get:81 http://ftpmaster.internal/ubuntu focal/main armhf autoconf all 2.69-11ubuntu1 [321 kB] Get:82 http://ftpmaster.internal/ubuntu focal/main armhf autotools-dev all 20180224.1 [39.6 kB] Get:83 http://ftpmaster.internal/ubuntu focal/main armhf automake all 1:1.16.1-4ubuntu3 [522 kB] Get:84 http://ftpmaster.internal/ubuntu focal/main armhf autopoint all 0.19.8.1-10 [412 kB] Get:85 http://ftpmaster.internal/ubuntu focal/universe armhf binfmt-support armhf 2.2.0-2 [47.5 kB] Get:86 http://ftpmaster.internal/ubuntu focal/main armhf bison armhf 2:3.4.2+dfsg-1 [622 kB] Get:87 http://ftpmaster.internal/ubuntu focal/main armhf libllvm7 armhf 1:7.0.1-9build1 [11.1 MB] Get:88 http://ftpmaster.internal/ubuntu focal/main armhf libgc1c2 armhf 1:7.6.4-0.4 [72.2 kB] Get:89 http://ftpmaster.internal/ubuntu focal/universe armhf libobjc4 armhf 9.2.1-21ubuntu1 [39.1 kB] Get:90 http://ftpmaster.internal/ubuntu focal/universe armhf libobjc-9-dev armhf 9.2.1-21ubuntu1 [207 kB] Get:91 http://ftpmaster.internal/ubuntu focal/universe armhf libclang-common-7-dev armhf 1:7.0.1-9build1 [1324 kB] Get:92 http://ftpmaster.internal/ubuntu focal/universe armhf libclang1-7 armhf 1:7.0.1-9build1 [4953 kB] Get:93 http://ftpmaster.internal/ubuntu focal/universe armhf clang-7 armhf 1:7.0.1-9build1 [6623 kB] Get:94 http://ftpmaster.internal/ubuntu focal/main armhf cmake-data all 3.13.4-1build1 [1458 kB] Get:95 http://ftpmaster.internal/ubuntu focal/main armhf libarchive13 armhf 3.4.0-1build1 [290 kB] Get:96 http://ftpmaster.internal/ubuntu focal/main armhf libroken18-heimdal armhf 7.5.0+dfsg-3build1 [34.5 kB] Get:97 http://ftpmaster.internal/ubuntu focal/main armhf libasn1-8-heimdal armhf 7.5.0+dfsg-3build1 [140 kB] Get:98 http://ftpmaster.internal/ubuntu focal/main armhf libheimbase1-heimdal armhf 7.5.0+dfsg-3build1 [24.3 kB] Get:99 http://ftpmaster.internal/ubuntu focal/main armhf libhcrypto4-heimdal armhf 7.5.0+dfsg-3build1 [78.0 kB] Get:100 http://ftpmaster.internal/ubuntu focal/main armhf libwind0-heimdal armhf 7.5.0+dfsg-3build1 [46.9 kB] Get:101 http://ftpmaster.internal/ubuntu focal/main armhf libhx509-5-heimdal armhf 7.5.0+dfsg-3build1 [88.9 kB] Get:102 http://ftpmaster.internal/ubuntu focal/main armhf libkrb5-26-heimdal armhf 7.5.0+dfsg-3build1 [170 kB] Get:103 http://ftpmaster.internal/ubuntu focal/main armhf libheimntlm0-heimdal armhf 7.5.0+dfsg-3build1 [13.2 kB] Get:104 http://ftpmaster.internal/ubuntu focal/main armhf libgssapi3-heimdal armhf 7.5.0+dfsg-3build1 [79.7 kB] Get:105 http://ftpmaster.internal/ubuntu focal/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-1build3 [13.1 kB] Get:106 http://ftpmaster.internal/ubuntu focal/main armhf libsasl2-2 armhf 2.1.27+dfsg-1build3 [42.7 kB] Get:107 http://ftpmaster.internal/ubuntu focal/main armhf libldap-common all 2.4.48+dfsg-1ubuntu3 [17.3 kB] Get:108 http://ftpmaster.internal/ubuntu focal/main armhf libldap-2.4-2 armhf 2.4.48+dfsg-1ubuntu3 [133 kB] Get:109 http://ftpmaster.internal/ubuntu focal/main armhf libnghttp2-14 armhf 1.40.0-1 [68.0 kB] Get:110 http://ftpmaster.internal/ubuntu focal/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2build1 [49.1 kB] Get:111 http://ftpmaster.internal/ubuntu focal/main armhf libssh-4 armhf 0.9.0-1ubuntu1 [172 kB] Get:112 http://ftpmaster.internal/ubuntu focal/main armhf libcurl4 armhf 7.65.3-1ubuntu4 [200 kB] Get:113 http://ftpmaster.internal/ubuntu focal/main armhf libjsoncpp1 armhf 1.7.4-3 [65.9 kB] Get:114 http://ftpmaster.internal/ubuntu focal/main armhf librhash0 armhf 1.3.8-1 [125 kB] Get:115 http://ftpmaster.internal/ubuntu focal/main armhf libuv1 armhf 1.33.1-2 [68.2 kB] Get:116 http://ftpmaster.internal/ubuntu focal/main armhf cmake armhf 3.13.4-1build1 [3025 kB] Get:117 http://ftpmaster.internal/ubuntu focal/main armhf dctrl-tools armhf 2.24-3 [53.8 kB] Get:118 http://ftpmaster.internal/ubuntu focal/main armhf libtool all 2.4.6-11 [194 kB] Get:119 http://ftpmaster.internal/ubuntu focal/main armhf dh-autoreconf all 19 [16.1 kB] Get:120 http://ftpmaster.internal/ubuntu focal/main armhf libdebhelper-perl all 12.7.1ubuntu1 [52.0 kB] Get:121 http://ftpmaster.internal/ubuntu focal/main armhf libarchive-zip-perl all 1.67-1 [90.4 kB] Get:122 http://ftpmaster.internal/ubuntu focal/main armhf libsub-override-perl all 0.09-2 [9532 B] Get:123 http://ftpmaster.internal/ubuntu focal/main armhf libfile-stripnondeterminism-perl all 1.6.3-1 [16.0 kB] Get:124 http://ftpmaster.internal/ubuntu focal/main armhf dh-strip-nondeterminism all 1.6.3-1 [5224 B] Get:125 http://ftpmaster.internal/ubuntu focal/main armhf dwz armhf 0.13-4 [151 kB] Get:126 http://ftpmaster.internal/ubuntu focal/main armhf libcroco3 armhf 0.6.13-1 [70.5 kB] Get:127 http://ftpmaster.internal/ubuntu focal/main armhf gettext armhf 0.19.8.1-10 [836 kB] Get:128 http://ftpmaster.internal/ubuntu focal/main armhf intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:129 http://ftpmaster.internal/ubuntu focal/main armhf po-debconf all 1.0.21 [233 kB] Get:130 http://ftpmaster.internal/ubuntu focal/main armhf debhelper all 12.7.1ubuntu1 [875 kB] Get:131 http://ftpmaster.internal/ubuntu focal/main armhf python3-lib2to3 all 3.8.0-1 [75.6 kB] Get:132 http://ftpmaster.internal/ubuntu focal/main armhf python3-distutils all 3.8.0-1 [142 kB] Get:133 http://ftpmaster.internal/ubuntu focal/main armhf dh-python all 4.20191017ubuntu1 [88.5 kB] Get:134 http://ftpmaster.internal/ubuntu focal/main armhf xml-core all 0.18+nmu1 [21.6 kB] Get:135 http://ftpmaster.internal/ubuntu focal/main armhf docutils-common all 0.15.2+dfsg-1 [156 kB] Get:136 http://ftpmaster.internal/ubuntu focal/main armhf libllvm9 armhf 1:9.0.0-4ubuntu4 [12.9 MB] Get:137 http://ftpmaster.internal/ubuntu focal/universe armhf libclang1-9 armhf 1:9.0.0-4ubuntu4 [5497 kB] Get:138 http://ftpmaster.internal/ubuntu focal/universe armhf libxapian30 armhf 1.4.12-1 [547 kB] Get:139 http://ftpmaster.internal/ubuntu focal/universe armhf doxygen armhf 1.8.13-12 [3639 kB] Get:140 http://ftpmaster.internal/ubuntu focal/main armhf fontconfig armhf 2.13.1-2ubuntu2 [169 kB] Get:141 http://ftpmaster.internal/ubuntu focal/universe armhf fonts-lmodern all 2.004.5-6 [4532 kB] Get:142 http://ftpmaster.internal/ubuntu focal/main armhf hicolor-icon-theme all 0.17-2 [9976 B] Get:143 http://ftpmaster.internal/ubuntu focal/main armhf icu-devtools armhf 63.2-2 [160 kB] Get:144 http://ftpmaster.internal/ubuntu focal/universe armhf imagemagick-6.q16 armhf 8:6.9.10.23+dfsg-2.1ubuntu10 [427 kB] Get:145 http://ftpmaster.internal/ubuntu focal/universe armhf imagemagick armhf 8:6.9.10.23+dfsg-2.1ubuntu10 [14.4 kB] Get:146 http://ftpmaster.internal/ubuntu focal/main armhf libpaper1 armhf 1.1.28 [12.1 kB] Get:147 http://ftpmaster.internal/ubuntu focal/main armhf libpaper-utils armhf 1.1.28 [7960 B] Get:148 http://ftpmaster.internal/ubuntu focal/main armhf libkpathsea6 armhf 2019.20190605.51237-3 [48.8 kB] Get:149 http://ftpmaster.internal/ubuntu focal/main armhf libptexenc1 armhf 2019.20190605.51237-3 [34.9 kB] Get:150 http://ftpmaster.internal/ubuntu focal/main armhf libsynctex2 armhf 2019.20190605.51237-3 [42.9 kB] Get:151 http://ftpmaster.internal/ubuntu focal/main armhf libtexlua53 armhf 2019.20190605.51237-3 [81.8 kB] Get:152 http://ftpmaster.internal/ubuntu focal/main armhf libtexluajit2 armhf 2019.20190605.51237-3 [181 kB] Get:153 http://ftpmaster.internal/ubuntu focal/main armhf t1utils armhf 1.41-3 [48.2 kB] Get:154 http://ftpmaster.internal/ubuntu focal/main armhf libpixman-1-0 armhf 0.38.4-0ubuntu1 [159 kB] Get:155 http://ftpmaster.internal/ubuntu focal/main armhf libxcb-render0 armhf 1.13.1-2 [13.9 kB] Get:156 http://ftpmaster.internal/ubuntu focal/main armhf libxcb-shm0 armhf 1.13.1-2 [5380 B] Get:157 http://ftpmaster.internal/ubuntu focal/main armhf libxrender1 armhf 1:0.9.10-1 [15.6 kB] Get:158 http://ftpmaster.internal/ubuntu focal/main armhf libcairo2 armhf 1.16.0-4 [510 kB] Get:159 http://ftpmaster.internal/ubuntu focal/main armhf libgraphite2-3 armhf 1.3.13-11 [62.7 kB] Get:160 http://ftpmaster.internal/ubuntu focal/main armhf libharfbuzz0b armhf 2.6.4-1 [347 kB] Get:161 http://ftpmaster.internal/ubuntu focal/main armhf libharfbuzz-icu0 armhf 2.6.4-1 [5016 B] Get:162 http://ftpmaster.internal/ubuntu focal/universe armhf libteckit0 armhf 2.5.8+ds2-5ubuntu1 [245 kB] Get:163 http://ftpmaster.internal/ubuntu focal/main armhf x11-common all 1:7.7+19ubuntu12 [22.4 kB] Get:164 http://ftpmaster.internal/ubuntu focal/main armhf libice6 armhf 2:1.0.10-0ubuntu1 [34.1 kB] Get:165 http://ftpmaster.internal/ubuntu focal/main armhf libsm6 armhf 2:1.2.3-1 [14.1 kB] Get:166 http://ftpmaster.internal/ubuntu focal/main armhf libxt6 armhf 1:1.1.5-1 [129 kB] Get:167 http://ftpmaster.internal/ubuntu focal/main armhf libxmu6 armhf 2:1.1.3-0ubuntu1 [38.3 kB] Get:168 http://ftpmaster.internal/ubuntu focal/main armhf libxpm4 armhf 1:3.5.12-1 [29.0 kB] Get:169 http://ftpmaster.internal/ubuntu focal/main armhf libxaw7 armhf 2:1.0.13-1 [141 kB] Get:170 http://ftpmaster.internal/ubuntu focal/main armhf libxi6 armhf 2:1.7.10-0ubuntu1 [25.0 kB] Get:171 http://ftpmaster.internal/ubuntu focal/universe armhf libzzip-0-13 armhf 0.13.62-3.2 [22.0 kB] Get:172 http://ftpmaster.internal/ubuntu focal/main armhf texlive-binaries armhf 2019.20190605.51237-3 [6306 kB] Get:173 http://ftpmaster.internal/ubuntu focal/main armhf xdg-utils all 1.1.3-1ubuntu2 [60.5 kB] Get:174 http://ftpmaster.internal/ubuntu focal/universe armhf texlive-base all 2019.20191112-1 [20.5 MB] Get:175 http://ftpmaster.internal/ubuntu focal/universe armhf texlive-latex-base all 2019.20191112-1 [943 kB] Get:176 http://ftpmaster.internal/ubuntu focal/universe armhf latexmk all 1:4.65-0.2 [374 kB] Get:177 http://ftpmaster.internal/ubuntu focal/main armhf libblas3 armhf 3.9.0-1 [102 kB] Get:178 http://ftpmaster.internal/ubuntu focal/main armhf libboost1.67-dev armhf 1.67.0-13ubuntu2 [8365 kB] Get:179 http://ftpmaster.internal/ubuntu focal/main armhf libboost-atomic1.67.0 armhf 1.67.0-13ubuntu2 [201 kB] Get:180 http://ftpmaster.internal/ubuntu focal/main armhf libboost-atomic1.67-dev armhf 1.67.0-13ubuntu2 [199 kB] Get:181 http://ftpmaster.internal/ubuntu focal/main armhf libboost-system1.67.0 armhf 1.67.0-13ubuntu2 [204 kB] Get:182 http://ftpmaster.internal/ubuntu focal/main armhf libboost-chrono1.67.0 armhf 1.67.0-13ubuntu2 [205 kB] Get:183 http://ftpmaster.internal/ubuntu focal/main armhf libboost-chrono1.67-dev armhf 1.67.0-13ubuntu2 [208 kB] Get:184 http://ftpmaster.internal/ubuntu focal/main armhf libboost-date-time1.67.0 armhf 1.67.0-13ubuntu2 [212 kB] Get:185 http://ftpmaster.internal/ubuntu focal/main armhf libboost-serialization1.67.0 armhf 1.67.0-13ubuntu2 [277 kB] Get:186 http://ftpmaster.internal/ubuntu focal/main armhf libboost-serialization1.67-dev armhf 1.67.0-13ubuntu2 [344 kB] Get:187 http://ftpmaster.internal/ubuntu focal/main armhf libboost-date-time1.67-dev armhf 1.67.0-13ubuntu2 [222 kB] Get:188 http://ftpmaster.internal/ubuntu focal/main armhf libboost-dev armhf 1.67.0.2 [3540 B] Get:189 http://ftpmaster.internal/ubuntu focal/universe armhf libboost-regex1.67.0 armhf 1.67.0-13ubuntu2 [434 kB] Get:190 http://ftpmaster.internal/ubuntu focal/main armhf libicu-dev armhf 63.2-2 [8927 kB] Get:191 http://ftpmaster.internal/ubuntu focal/universe armhf libboost-regex1.67-dev armhf 1.67.0-13ubuntu2 [536 kB] Get:192 http://ftpmaster.internal/ubuntu focal/main armhf libboost-iostreams1.67.0 armhf 1.67.0-13ubuntu2 [221 kB] Get:193 http://ftpmaster.internal/ubuntu focal/universe armhf libboost-iostreams1.67-dev armhf 1.67.0-13ubuntu2 [229 kB] Get:194 http://ftpmaster.internal/ubuntu focal/universe armhf libboost-iostreams-dev armhf 1.67.0.2 [3328 B] Get:195 http://ftpmaster.internal/ubuntu focal/main armhf libboost-python1.67.0 armhf 1.67.0-13ubuntu2 [316 kB] Get:196 http://ftpmaster.internal/ubuntu focal/universe armhf libpython2.7 armhf 2.7.17-1 [901 kB] Get:197 http://ftpmaster.internal/ubuntu focal/main armhf libexpat1-dev armhf 2.2.9-1 [99.9 kB] Get:198 http://ftpmaster.internal/ubuntu focal/universe armhf libpython2.7-dev armhf 2.7.17-1 [2152 kB] Get:199 http://ftpmaster.internal/ubuntu focal/universe armhf libpython2-dev armhf 2.7.17-1 [7460 B] Get:200 http://ftpmaster.internal/ubuntu focal/universe armhf libpython-dev armhf 2.7.17-1 [5892 B] Get:201 http://ftpmaster.internal/ubuntu focal/universe armhf python2.7-dev armhf 2.7.17-1 [279 kB] Get:202 http://ftpmaster.internal/ubuntu focal/universe armhf python2-dev armhf 2.7.17-1 [1268 B] Get:203 http://ftpmaster.internal/ubuntu focal/universe armhf python-dev armhf 2.7.17-1 [1240 B] Get:204 http://ftpmaster.internal/ubuntu focal/main armhf libpython3.7 armhf 3.7.5-2 [1279 kB] Get:205 http://ftpmaster.internal/ubuntu focal/main armhf libpython3.7-dev armhf 3.7.5-2 [2774 kB] Get:206 http://ftpmaster.internal/ubuntu focal/main armhf libpython3-dev armhf 3.7.5-1ubuntu1 [6940 B] Get:207 http://ftpmaster.internal/ubuntu focal/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1ubuntu3 [166 kB] Get:208 http://ftpmaster.internal/ubuntu focal/main armhf python3.7-dev armhf 3.7.5-2 [514 kB] Get:209 http://ftpmaster.internal/ubuntu focal/main armhf python3-dev armhf 3.7.5-1ubuntu1 [1316 B] Get:210 http://ftpmaster.internal/ubuntu focal/universe armhf libboost-python1.67-dev armhf 1.67.0-13ubuntu2 [344 kB] Get:211 http://ftpmaster.internal/ubuntu focal/universe armhf libboost-python-dev armhf 1.67.0.2 [3632 B] Get:212 http://ftpmaster.internal/ubuntu focal/universe armhf libboost-regex-dev armhf 1.67.0.2 [3600 B] Get:213 http://ftpmaster.internal/ubuntu focal/main armhf libboost-system1.67-dev armhf 1.67.0-13ubuntu2 [206 kB] Get:214 http://ftpmaster.internal/ubuntu focal/main armhf libboost-system-dev armhf 1.67.0.2 [3476 B] Get:215 http://ftpmaster.internal/ubuntu focal/main armhf libboost-thread1.67.0 armhf 1.67.0-13ubuntu2 [237 kB] Get:216 http://ftpmaster.internal/ubuntu focal/main armhf libboost-thread1.67-dev armhf 1.67.0-13ubuntu2 [247 kB] Get:217 http://ftpmaster.internal/ubuntu focal/main armhf libboost-thread-dev armhf 1.67.0.2 [3360 B] Get:218 http://ftpmaster.internal/ubuntu focal/main armhf libdatrie1 armhf 0.2.12-3 [15.2 kB] Get:219 http://ftpmaster.internal/ubuntu focal/main armhf libgdk-pixbuf2.0-common all 2.40.0+dfsg-1ubuntu1 [4812 B] Get:220 http://ftpmaster.internal/ubuntu focal/main armhf libgdk-pixbuf2.0-0 armhf 2.40.0+dfsg-1ubuntu1 [152 kB] Get:221 http://ftpmaster.internal/ubuntu focal/main armhf libgfortran5 armhf 9.2.1-21ubuntu1 [252 kB] Get:222 http://ftpmaster.internal/ubuntu focal/main armhf libimagequant0 armhf 2.12.2-1.1 [26.2 kB] Get:223 http://ftpmaster.internal/ubuntu focal/main armhf libjs-jquery all 3.3.1~dfsg-3 [329 kB] Get:224 http://ftpmaster.internal/ubuntu focal/main armhf libjs-underscore all 1.9.1~dfsg-1 [98.6 kB] Get:225 http://ftpmaster.internal/ubuntu focal/main armhf libjs-sphinxdoc all 1.8.5-3 [96.5 kB] Get:226 http://ftpmaster.internal/ubuntu focal/main armhf liblapack3 armhf 3.9.0-1 [1733 kB] Get:227 http://ftpmaster.internal/ubuntu focal/main armhf libncurses-dev armhf 6.1+20191019-1ubuntu1 [301 kB] Get:228 http://ftpmaster.internal/ubuntu focal/main armhf libthai-data all 0.1.28-3 [134 kB] Get:229 http://ftpmaster.internal/ubuntu focal/main armhf libthai0 armhf 0.1.28-3 [14.7 kB] Get:230 http://ftpmaster.internal/ubuntu focal/main armhf libpango-1.0-0 armhf 1.44.7-1 [143 kB] Get:231 http://ftpmaster.internal/ubuntu focal/main armhf libpangoft2-1.0-0 armhf 1.44.7-1 [28.6 kB] Get:232 http://ftpmaster.internal/ubuntu focal/main armhf libpangocairo-1.0-0 armhf 1.44.7-1 [20.7 kB] Get:233 http://ftpmaster.internal/ubuntu focal/main armhf libpq5 armhf 12.1-1 [96.3 kB] Get:234 http://ftpmaster.internal/ubuntu focal/main armhf libpq-dev armhf 12.1-1 [124 kB] Get:235 http://ftpmaster.internal/ubuntu focal/main armhf libpython3.8-stdlib armhf 3.8.0-5 [1593 kB] Get:236 http://ftpmaster.internal/ubuntu focal/main armhf librsvg2-2 armhf 2.46.4-1ubuntu1 [1102 kB] Get:237 http://ftpmaster.internal/ubuntu focal/universe armhf librsvg2-bin armhf 2.46.4-1ubuntu1 [13.2 kB] Get:238 http://ftpmaster.internal/ubuntu focal/universe armhf libschroedinger-maeparser1 armhf 1.2-1 [74.3 kB] Get:239 http://ftpmaster.internal/ubuntu focal/universe armhf libschroedinger-coordgenlibs1 armhf 1.3-1 [151 kB] Get:240 http://ftpmaster.internal/ubuntu focal/universe armhf libschroedinger-coordgenlibs-dev armhf 1.3-1 [28.8 kB] Get:241 http://ftpmaster.internal/ubuntu focal/universe armhf libschroedinger-maeparser-dev armhf 1.2-1 [11.0 kB] Get:242 http://ftpmaster.internal/ubuntu focal/main armhf libsqlite3-dev armhf 3.30.1-1ubuntu1 [621 kB] Get:243 http://ftpmaster.internal/ubuntu focal/main armhf libtinfo-dev armhf 6.1+20191019-1ubuntu1 [984 B] Get:244 http://ftpmaster.internal/ubuntu focal/main armhf libwebpdemux2 armhf 0.6.1-2 [8760 B] Get:245 http://ftpmaster.internal/ubuntu focal/universe armhf llvm-7-runtime armhf 1:7.0.1-9build1 [133 kB] Get:246 http://ftpmaster.internal/ubuntu focal/universe armhf llvm-7 armhf 1:7.0.1-9build1 [3685 kB] Get:247 http://ftpmaster.internal/ubuntu focal/main armhf libffi-dev armhf 3.2.1-9 [154 kB] Get:248 http://ftpmaster.internal/ubuntu focal/universe armhf llvm-7-dev armhf 1:7.0.1-9build1 [20.6 MB] Get:249 http://ftpmaster.internal/ubuntu focal/universe armhf pandoc-data all 2.5-3 [76.4 kB] Get:250 http://ftpmaster.internal/ubuntu focal/universe armhf pandoc armhf 2.5-3 [18.3 MB] Get:251 http://ftpmaster.internal/ubuntu focal/main armhf postgresql-client-common all 204ubuntu1 [29.0 kB] Get:252 http://ftpmaster.internal/ubuntu focal/main armhf ssl-cert all 1.0.39 [17.0 kB] Get:253 http://ftpmaster.internal/ubuntu focal/main armhf postgresql-common all 204ubuntu1 [169 kB] Get:254 http://ftpmaster.internal/ubuntu focal/universe armhf postgresql-server-dev-11 armhf 11.5-1build1 [902 kB] Get:255 http://ftpmaster.internal/ubuntu focal/universe armhf postgresql-server-dev-all all 204ubuntu1 [8328 B] Get:256 http://ftpmaster.internal/ubuntu focal/universe armhf preview-latex-style all 11.91-2ubuntu1 [185 kB] Get:257 http://ftpmaster.internal/ubuntu focal/main armhf python-babel-localedata all 2.6.0+dfsg.1-1 [4071 kB] Get:258 http://ftpmaster.internal/ubuntu focal/main armhf python3-attr all 18.2.0-1 [29.6 kB] Get:259 http://ftpmaster.internal/ubuntu focal/main armhf python3-tz all 2019.3-1 [24.4 kB] Get:260 http://ftpmaster.internal/ubuntu focal/main armhf python3-babel all 2.6.0+dfsg.1-1 [83.4 kB] Get:261 http://ftpmaster.internal/ubuntu focal/main armhf python3-certifi all 2018.8.24-1 [140 kB] Get:262 http://ftpmaster.internal/ubuntu focal/main armhf python3-chardet all 3.0.4-4 [80.6 kB] Get:263 http://ftpmaster.internal/ubuntu focal/universe armhf python3-commonmark-bkrs all 0.5.4+ds-4 [29.6 kB] Get:264 http://ftpmaster.internal/ubuntu focal/main armhf python3-dateutil all 2.7.3-3 [63.3 kB] Get:265 http://ftpmaster.internal/ubuntu focal/main armhf python3-roman all 2.0.0-3 [8624 B] Get:266 http://ftpmaster.internal/ubuntu focal/main armhf python3-docutils all 0.15.2+dfsg-1 [366 kB] Get:267 http://ftpmaster.internal/ubuntu focal/main armhf python3-idna all 2.6-2 [32.6 kB] Get:268 http://ftpmaster.internal/ubuntu focal/main armhf python3-imagesize all 1.0.0-1 [5004 B] Get:269 http://ftpmaster.internal/ubuntu focal/main armhf python3-markupsafe armhf 1.1.0-1build1 [13.8 kB] Get:270 http://ftpmaster.internal/ubuntu focal/main armhf python3-jinja2 all 2.10-2ubuntu1 [95.5 kB] Get:271 http://ftpmaster.internal/ubuntu focal/main armhf python3.8 armhf 3.8.0-5 [355 kB] Get:272 http://ftpmaster.internal/ubuntu focal/main armhf python3-numpy armhf 1:1.17.4-3ubuntu2 [4210 kB] Get:273 http://ftpmaster.internal/ubuntu focal/main armhf python3-pyparsing all 2.4.2-1 [58.8 kB] Get:274 http://ftpmaster.internal/ubuntu focal/main armhf python3-packaging all 19.1-2 [21.7 kB] Get:275 http://ftpmaster.internal/ubuntu focal/universe armhf python3-pandas-lib armhf 0.25.3+dfsg-4 [7366 kB] Get:276 http://ftpmaster.internal/ubuntu focal/universe armhf python3-pandas all 0.25.3+dfsg-4 [1967 kB] Get:277 http://ftpmaster.internal/ubuntu focal/main armhf python3-pil armhf 6.2.1-2 [340 kB] Get:278 http://ftpmaster.internal/ubuntu focal/main armhf python3-pygments all 2.3.1+dfsg-1ubuntu1 [580 kB] Get:279 http://ftpmaster.internal/ubuntu focal/universe armhf python3-recommonmark all 0.4.0+ds-6 [15.0 kB] Get:280 http://ftpmaster.internal/ubuntu focal/main armhf python3-urllib3 all 1.24.1-1ubuntu1 [83.8 kB] Get:281 http://ftpmaster.internal/ubuntu focal/main armhf python3-requests all 2.21.0-1 [46.8 kB] Get:282 http://ftpmaster.internal/ubuntu focal/main armhf sphinx-common all 1.8.5-3 [501 kB] Get:283 http://ftpmaster.internal/ubuntu focal/main armhf python3-alabaster all 0.7.8-1 [18.5 kB] Get:284 http://ftpmaster.internal/ubuntu focal/main armhf python3-sphinx all 1.8.5-3 [482 kB] Get:285 http://ftpmaster.internal/ubuntu focal/universe armhf rapidjson-dev all 1.1.0+dfsg2-5 [95.0 kB] Get:286 http://ftpmaster.internal/ubuntu focal/universe armhf texlive-fonts-recommended all 2019.20191112-1 [5199 kB] Get:287 http://ftpmaster.internal/ubuntu focal/universe armhf texlive-latex-recommended all 2019.20191112-1 [15.7 MB] Get:288 http://ftpmaster.internal/ubuntu focal/universe armhf texlive-pictures all 2019.20191112-1 [4431 kB] Get:289 http://ftpmaster.internal/ubuntu focal/universe armhf texlive-latex-extra all 2019.20191112-1 [12.4 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 264 MB in 10s (25.2 MB/s) Selecting previously unselected package libpython3.7-minimal:armhf. (Reading database ... 14420 files and directories currently installed.) Preparing to unpack .../libpython3.7-minimal_3.7.5-2_armhf.deb ... Unpacking libpython3.7-minimal:armhf (3.7.5-2) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.2.9-1_armhf.deb ... Unpacking libexpat1:armhf (2.2.9-1) ... Selecting previously unselected package python3.7-minimal. Preparing to unpack .../python3.7-minimal_3.7.5-2_armhf.deb ... Unpacking python3.7-minimal (3.7.5-2) ... Setting up libpython3.7-minimal:armhf (3.7.5-2) ... Setting up libexpat1:armhf (2.2.9-1) ... Setting up python3.7-minimal (3.7.5-2) ... Selecting previously unselected package python3-minimal. (Reading database ... 14669 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.7.5-1ubuntu1_armhf.deb ... Unpacking python3-minimal (3.7.5-1ubuntu1) ... Selecting previously unselected package mime-support. Preparing to unpack .../1-mime-support_3.64ubuntu1_all.deb ... Unpacking mime-support (3.64ubuntu1) ... Selecting previously unselected package libmpdec2:armhf. Preparing to unpack .../2-libmpdec2_2.4.2-2_armhf.deb ... Unpacking libmpdec2:armhf (2.4.2-2) ... Selecting previously unselected package libpython3.7-stdlib:armhf. Preparing to unpack .../3-libpython3.7-stdlib_3.7.5-2_armhf.deb ... Unpacking libpython3.7-stdlib:armhf (3.7.5-2) ... Selecting previously unselected package python3.7. Preparing to unpack .../4-python3.7_3.7.5-2_armhf.deb ... Unpacking python3.7 (3.7.5-2) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../5-libpython3-stdlib_3.7.5-1ubuntu1_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.7.5-1ubuntu1) ... Setting up python3-minimal (3.7.5-1ubuntu1) ... Selecting previously unselected package python3. (Reading database ... 15107 files and directories currently installed.) Preparing to unpack .../00-python3_3.7.5-1ubuntu1_armhf.deb ... Unpacking python3 (3.7.5-1ubuntu1) ... Selecting previously unselected package libbsd0:armhf. Preparing to unpack .../01-libbsd0_0.10.0-1_armhf.deb ... Unpacking libbsd0:armhf (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../02-bsdmainutils_11.1.2ubuntu2_armhf.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../03-libuchardet0_0.0.6-3_armhf.deb ... Unpacking libuchardet0:armhf (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../04-groff-base_1.22.4-3_armhf.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../05-libpipeline1_1.5.1-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../06-man-db_2.9.0-1_armhf.deb ... Unpacking man-db (2.9.0-1) ... Selecting previously unselected package libsigsegv2:armhf. Preparing to unpack .../07-libsigsegv2_2.12-2_armhf.deb ... Unpacking libsigsegv2:armhf (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../08-m4_1.4.18-4_armhf.deb ... Unpacking m4 (1.4.18-4) ... Selecting previously unselected package flex. Preparing to unpack .../09-flex_2.6.4-6.2_armhf.deb ... Unpacking flex (2.6.4-6.2) ... Selecting previously unselected package libfftw3-double3:armhf. Preparing to unpack .../10-libfftw3-double3_3.3.8-2ubuntu1_armhf.deb ... Unpacking libfftw3-double3:armhf (3.3.8-2ubuntu1) ... Selecting previously unselected package libfreetype6:armhf. Preparing to unpack .../11-libfreetype6_2.10.1-2_armhf.deb ... Unpacking libfreetype6:armhf (2.10.1-2) ... Selecting previously unselected package ucf. Preparing to unpack .../12-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../13-fonts-dejavu-core_2.37-1_all.deb ... Unpacking fonts-dejavu-core (2.37-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../14-fontconfig-config_2.13.1-2ubuntu2_all.deb ... Unpacking fontconfig-config (2.13.1-2ubuntu2) ... Selecting previously unselected package libfontconfig1:armhf. Preparing to unpack .../15-libfontconfig1_2.13.1-2ubuntu2_armhf.deb ... Unpacking libfontconfig1:armhf (2.13.1-2ubuntu2) ... Selecting previously unselected package libjbig0:armhf. Preparing to unpack .../16-libjbig0_2.1-3.1build1_armhf.deb ... Unpacking libjbig0:armhf (2.1-3.1build1) ... Selecting previously unselected package libjpeg-turbo8:armhf. Preparing to unpack .../17-libjpeg-turbo8_2.0.3-0ubuntu1_armhf.deb ... Unpacking libjpeg-turbo8:armhf (2.0.3-0ubuntu1) ... Selecting previously unselected package libjpeg8:armhf. Preparing to unpack .../18-libjpeg8_8c-2ubuntu8_armhf.deb ... Unpacking libjpeg8:armhf (8c-2ubuntu8) ... Selecting previously unselected package liblcms2-2:armhf. Preparing to unpack .../19-liblcms2-2_2.9-4_armhf.deb ... Unpacking liblcms2-2:armhf (2.9-4) ... Selecting previously unselected package libglib2.0-0:armhf. Preparing to unpack .../20-libglib2.0-0_2.63.1-2_armhf.deb ... Unpacking libglib2.0-0:armhf (2.63.1-2) ... Selecting previously unselected package liblqr-1-0:armhf. Preparing to unpack .../21-liblqr-1-0_0.4.2-2.1_armhf.deb ... Unpacking liblqr-1-0:armhf (0.4.2-2.1) ... Selecting previously unselected package libltdl7:armhf. Preparing to unpack .../22-libltdl7_2.4.6-11_armhf.deb ... Unpacking libltdl7:armhf (2.4.6-11) ... Selecting previously unselected package libwebp6:armhf. Preparing to unpack .../23-libwebp6_0.6.1-2_armhf.deb ... Unpacking libwebp6:armhf (0.6.1-2) ... Selecting previously unselected package libtiff5:armhf. Preparing to unpack .../24-libtiff5_4.1.0+git191117-1_armhf.deb ... Unpacking libtiff5:armhf (4.1.0+git191117-1) ... Selecting previously unselected package libwebpmux3:armhf. Preparing to unpack .../25-libwebpmux3_0.6.1-2_armhf.deb ... Unpacking libwebpmux3:armhf (0.6.1-2) ... Selecting previously unselected package libxau6:armhf. Preparing to unpack .../26-libxau6_1%3a1.0.9-0ubuntu1_armhf.deb ... Unpacking libxau6:armhf (1:1.0.9-0ubuntu1) ... Selecting previously unselected package libxdmcp6:armhf. Preparing to unpack .../27-libxdmcp6_1%3a1.1.3-0ubuntu1_armhf.deb ... Unpacking libxdmcp6:armhf (1:1.1.3-0ubuntu1) ... Selecting previously unselected package libxcb1:armhf. Preparing to unpack .../28-libxcb1_1.13.1-2_armhf.deb ... Unpacking libxcb1:armhf (1.13.1-2) ... Selecting previously unselected package libx11-data. Preparing to unpack .../29-libx11-data_2%3a1.6.8-1_all.deb ... Unpacking libx11-data (2:1.6.8-1) ... Selecting previously unselected package libx11-6:armhf. Preparing to unpack .../30-libx11-6_2%3a1.6.8-1_armhf.deb ... Unpacking libx11-6:armhf (2:1.6.8-1) ... Selecting previously unselected package libxext6:armhf. Preparing to unpack .../31-libxext6_2%3a1.3.4-0ubuntu1_armhf.deb ... Unpacking libxext6:armhf (2:1.3.4-0ubuntu1) ... Selecting previously unselected package libicu63:armhf. Preparing to unpack .../32-libicu63_63.2-2_armhf.deb ... Unpacking libicu63:armhf (63.2-2) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../33-libxml2_2.9.4+dfsg1-7ubuntu5_armhf.deb ... Unpacking libxml2:armhf (2.9.4+dfsg1-7ubuntu5) ... Selecting previously unselected package imagemagick-6-common. Preparing to unpack .../34-imagemagick-6-common_8%3a6.9.10.23+dfsg-2.1ubuntu10_all.deb ... Unpacking imagemagick-6-common (8:6.9.10.23+dfsg-2.1ubuntu10) ... Selecting previously unselected package libmagickcore-6.q16-6:armhf. Preparing to unpack .../35-libmagickcore-6.q16-6_8%3a6.9.10.23+dfsg-2.1ubuntu10_armhf.deb ... Unpacking libmagickcore-6.q16-6:armhf (8:6.9.10.23+dfsg-2.1ubuntu10) ... Selecting previously unselected package libmagickwand-6.q16-6:armhf. Preparing to unpack .../36-libmagickwand-6.q16-6_8%3a6.9.10.23+dfsg-2.1ubuntu10_armhf.deb ... Unpacking libmagickwand-6.q16-6:armhf (8:6.9.10.23+dfsg-2.1ubuntu10) ... Selecting previously unselected package libpython2.7-minimal:armhf. Preparing to unpack .../37-libpython2.7-minimal_2.7.17-1_armhf.deb ... Unpacking libpython2.7-minimal:armhf (2.7.17-1) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../38-python2.7-minimal_2.7.17-1_armhf.deb ... Unpacking python2.7-minimal (2.7.17-1) ... Selecting previously unselected package python2-minimal. Preparing to unpack .../39-python2-minimal_2.7.17-1_armhf.deb ... Unpacking python2-minimal (2.7.17-1) ... Selecting previously unselected package python-minimal. Preparing to unpack .../40-python-minimal_2.7.17-1_armhf.deb ... Unpacking python-minimal (2.7.17-1) ... Selecting previously unselected package libpython2.7-stdlib:armhf. Preparing to unpack .../41-libpython2.7-stdlib_2.7.17-1_armhf.deb ... Unpacking libpython2.7-stdlib:armhf (2.7.17-1) ... Selecting previously unselected package python2.7. Preparing to unpack .../42-python2.7_2.7.17-1_armhf.deb ... Unpacking python2.7 (2.7.17-1) ... Selecting previously unselected package libpython2-stdlib:armhf. Preparing to unpack .../43-libpython2-stdlib_2.7.17-1_armhf.deb ... Unpacking libpython2-stdlib:armhf (2.7.17-1) ... Selecting previously unselected package libpython-stdlib:armhf. Preparing to unpack .../44-libpython-stdlib_2.7.17-1_armhf.deb ... Unpacking libpython-stdlib:armhf (2.7.17-1) ... Setting up libpython2.7-minimal:armhf (2.7.17-1) ... Setting up python2.7-minimal (2.7.17-1) ... Setting up python2-minimal (2.7.17-1) ... Selecting previously unselected package python2. (Reading database ... 17446 files and directories currently installed.) Preparing to unpack .../python2_2.7.17-1_armhf.deb ... Unpacking python2 (2.7.17-1) ... Setting up python-minimal (2.7.17-1) ... Selecting previously unselected package python. (Reading database ... 17478 files and directories currently installed.) Preparing to unpack .../000-python_2.7.17-1_armhf.deb ... Unpacking python (2.7.17-1) ... Selecting previously unselected package libpython3.8-minimal:armhf. Preparing to unpack .../001-libpython3.8-minimal_3.8.0-5_armhf.deb ... Unpacking libpython3.8-minimal:armhf (3.8.0-5) ... Selecting previously unselected package python3.8-minimal. Preparing to unpack .../002-python3.8-minimal_3.8.0-5_armhf.deb ... Unpacking python3.8-minimal (3.8.0-5) ... Selecting previously unselected package sgml-base. Preparing to unpack .../003-sgml-base_1.29.1_all.deb ... Unpacking sgml-base (1.29.1) ... Selecting previously unselected package tex-common. Preparing to unpack .../004-tex-common_6.13_all.deb ... Unpacking tex-common (6.13) ... Selecting previously unselected package distro-info-data. Preparing to unpack .../005-distro-info-data_0.40ubuntu3_all.deb ... Unpacking distro-info-data (0.40ubuntu3) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.37-6_armhf.deb ... Unpacking libmagic-mgc (1:5.37-6) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../007-libmagic1_1%3a5.37-6_armhf.deb ... Unpacking libmagic1:armhf (1:5.37-6) ... Selecting previously unselected package file. Preparing to unpack .../008-file_1%3a5.37-6_armhf.deb ... Unpacking file (1:5.37-6) ... Selecting previously unselected package libelf1:armhf. Preparing to unpack .../009-libelf1_0.176-1.1_armhf.deb ... Unpacking libelf1:armhf (0.176-1.1) ... Selecting previously unselected package libfribidi0:armhf. Preparing to unpack .../010-libfribidi0_1.0.7-1.1_armhf.deb ... Unpacking libfribidi0:armhf (1.0.7-1.1) ... Selecting previously unselected package lsb-release. Preparing to unpack .../011-lsb-release_11.1.0ubuntu1_all.deb ... Unpacking lsb-release (11.1.0ubuntu1) ... Selecting previously unselected package netbase. Preparing to unpack .../012-netbase_5.6_all.deb ... Unpacking netbase (5.6) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../013-python3-pkg-resources_41.4.0-1_all.deb ... Unpacking python3-pkg-resources (41.4.0-1) ... Selecting previously unselected package python3-six. Preparing to unpack .../014-python3-six_1.12.0-2build1_all.deb ... Unpacking python3-six (1.12.0-2build1) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../015-shared-mime-info_1.10-1_armhf.deb ... Unpacking shared-mime-info (1.10-1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../016-gettext-base_0.19.8.1-10_armhf.deb ... Unpacking gettext-base (0.19.8.1-10) ... Selecting previously unselected package libedit2:armhf. Preparing to unpack .../017-libedit2_3.1-20191025-1_armhf.deb ... Unpacking libedit2:armhf (3.1-20191025-1) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../018-libkrb5support0_1.17-6_armhf.deb ... Unpacking libkrb5support0:armhf (1.17-6) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../019-libk5crypto3_1.17-6_armhf.deb ... Unpacking libk5crypto3:armhf (1.17-6) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../020-libkeyutils1_1.6-6ubuntu1_armhf.deb ... Unpacking libkeyutils1:armhf (1.6-6ubuntu1) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../021-libkrb5-3_1.17-6_armhf.deb ... Unpacking libkrb5-3:armhf (1.17-6) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../022-libgssapi-krb5-2_1.17-6_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.17-6) ... Selecting previously unselected package libpsl5:armhf. Preparing to unpack .../023-libpsl5_0.20.2-2_armhf.deb ... Unpacking libpsl5:armhf (0.20.2-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../024-autoconf_2.69-11ubuntu1_all.deb ... Unpacking autoconf (2.69-11ubuntu1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../025-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../026-automake_1%3a1.16.1-4ubuntu3_all.deb ... Unpacking automake (1:1.16.1-4ubuntu3) ... Selecting previously unselected package autopoint. Preparing to unpack .../027-autopoint_0.19.8.1-10_all.deb ... Unpacking autopoint (0.19.8.1-10) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../028-binfmt-support_2.2.0-2_armhf.deb ... Unpacking binfmt-support (2.2.0-2) ... Selecting previously unselected package bison. Preparing to unpack .../029-bison_2%3a3.4.2+dfsg-1_armhf.deb ... Unpacking bison (2:3.4.2+dfsg-1) ... Selecting previously unselected package libllvm7:armhf. Preparing to unpack .../030-libllvm7_1%3a7.0.1-9build1_armhf.deb ... Unpacking libllvm7:armhf (1:7.0.1-9build1) ... Selecting previously unselected package libgc1c2:armhf. Preparing to unpack .../031-libgc1c2_1%3a7.6.4-0.4_armhf.deb ... Unpacking libgc1c2:armhf (1:7.6.4-0.4) ... Selecting previously unselected package libobjc4:armhf. Preparing to unpack .../032-libobjc4_9.2.1-21ubuntu1_armhf.deb ... Unpacking libobjc4:armhf (9.2.1-21ubuntu1) ... Selecting previously unselected package libobjc-9-dev:armhf. Preparing to unpack .../033-libobjc-9-dev_9.2.1-21ubuntu1_armhf.deb ... Unpacking libobjc-9-dev:armhf (9.2.1-21ubuntu1) ... Selecting previously unselected package libclang-common-7-dev. Preparing to unpack .../034-libclang-common-7-dev_1%3a7.0.1-9build1_armhf.deb ... Unpacking libclang-common-7-dev (1:7.0.1-9build1) ... Selecting previously unselected package libclang1-7. Preparing to unpack .../035-libclang1-7_1%3a7.0.1-9build1_armhf.deb ... Unpacking libclang1-7 (1:7.0.1-9build1) ... Selecting previously unselected package clang-7. Preparing to unpack .../036-clang-7_1%3a7.0.1-9build1_armhf.deb ... Unpacking clang-7 (1:7.0.1-9build1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../037-cmake-data_3.13.4-1build1_all.deb ... Unpacking cmake-data (3.13.4-1build1) ... Selecting previously unselected package libarchive13:armhf. Preparing to unpack .../038-libarchive13_3.4.0-1build1_armhf.deb ... Unpacking libarchive13:armhf (3.4.0-1build1) ... Selecting previously unselected package libroken18-heimdal:armhf. Preparing to unpack .../039-libroken18-heimdal_7.5.0+dfsg-3build1_armhf.deb ... Unpacking libroken18-heimdal:armhf (7.5.0+dfsg-3build1) ... Selecting previously unselected package libasn1-8-heimdal:armhf. Preparing to unpack .../040-libasn1-8-heimdal_7.5.0+dfsg-3build1_armhf.deb ... Unpacking libasn1-8-heimdal:armhf (7.5.0+dfsg-3build1) ... Selecting previously unselected package libheimbase1-heimdal:armhf. Preparing to unpack .../041-libheimbase1-heimdal_7.5.0+dfsg-3build1_armhf.deb ... Unpacking libheimbase1-heimdal:armhf (7.5.0+dfsg-3build1) ... Selecting previously unselected package libhcrypto4-heimdal:armhf. Preparing to unpack .../042-libhcrypto4-heimdal_7.5.0+dfsg-3build1_armhf.deb ... Unpacking libhcrypto4-heimdal:armhf (7.5.0+dfsg-3build1) ... Selecting previously unselected package libwind0-heimdal:armhf. Preparing to unpack .../043-libwind0-heimdal_7.5.0+dfsg-3build1_armhf.deb ... Unpacking libwind0-heimdal:armhf (7.5.0+dfsg-3build1) ... Selecting previously unselected package libhx509-5-heimdal:armhf. Preparing to unpack .../044-libhx509-5-heimdal_7.5.0+dfsg-3build1_armhf.deb ... Unpacking libhx509-5-heimdal:armhf (7.5.0+dfsg-3build1) ... Selecting previously unselected package libkrb5-26-heimdal:armhf. Preparing to unpack .../045-libkrb5-26-heimdal_7.5.0+dfsg-3build1_armhf.deb ... Unpacking libkrb5-26-heimdal:armhf (7.5.0+dfsg-3build1) ... Selecting previously unselected package libheimntlm0-heimdal:armhf. Preparing to unpack .../046-libheimntlm0-heimdal_7.5.0+dfsg-3build1_armhf.deb ... Unpacking libheimntlm0-heimdal:armhf (7.5.0+dfsg-3build1) ... Selecting previously unselected package libgssapi3-heimdal:armhf. Preparing to unpack .../047-libgssapi3-heimdal_7.5.0+dfsg-3build1_armhf.deb ... Unpacking libgssapi3-heimdal:armhf (7.5.0+dfsg-3build1) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../048-libsasl2-modules-db_2.1.27+dfsg-1build3_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.27+dfsg-1build3) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../049-libsasl2-2_2.1.27+dfsg-1build3_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.27+dfsg-1build3) ... Selecting previously unselected package libldap-common. Preparing to unpack .../050-libldap-common_2.4.48+dfsg-1ubuntu3_all.deb ... Unpacking libldap-common (2.4.48+dfsg-1ubuntu3) ... Selecting previously unselected package libldap-2.4-2:armhf. Preparing to unpack .../051-libldap-2.4-2_2.4.48+dfsg-1ubuntu3_armhf.deb ... Unpacking libldap-2.4-2:armhf (2.4.48+dfsg-1ubuntu3) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../052-libnghttp2-14_1.40.0-1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.40.0-1) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../053-librtmp1_2.4+20151223.gitfa8646d.1-2build1_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2build1) ... Selecting previously unselected package libssh-4:armhf. Preparing to unpack .../054-libssh-4_0.9.0-1ubuntu1_armhf.deb ... Unpacking libssh-4:armhf (0.9.0-1ubuntu1) ... Selecting previously unselected package libcurl4:armhf. Preparing to unpack .../055-libcurl4_7.65.3-1ubuntu4_armhf.deb ... Unpacking libcurl4:armhf (7.65.3-1ubuntu4) ... Selecting previously unselected package libjsoncpp1:armhf. Preparing to unpack .../056-libjsoncpp1_1.7.4-3_armhf.deb ... Unpacking libjsoncpp1:armhf (1.7.4-3) ... Selecting previously unselected package librhash0:armhf. Preparing to unpack .../057-librhash0_1.3.8-1_armhf.deb ... Unpacking librhash0:armhf (1.3.8-1) ... Selecting previously unselected package libuv1:armhf. Preparing to unpack .../058-libuv1_1.33.1-2_armhf.deb ... Unpacking libuv1:armhf (1.33.1-2) ... Selecting previously unselected package cmake. Preparing to unpack .../059-cmake_3.13.4-1build1_armhf.deb ... Unpacking cmake (3.13.4-1build1) ... Selecting previously unselected package dctrl-tools. Preparing to unpack .../060-dctrl-tools_2.24-3_armhf.deb ... Unpacking dctrl-tools (2.24-3) ... Selecting previously unselected package libtool. Preparing to unpack .../061-libtool_2.4.6-11_all.deb ... Unpacking libtool (2.4.6-11) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../062-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../063-libdebhelper-perl_12.7.1ubuntu1_all.deb ... Unpacking libdebhelper-perl (12.7.1ubuntu1) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../064-libarchive-zip-perl_1.67-1_all.deb ... Unpacking libarchive-zip-perl (1.67-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../065-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../066-libfile-stripnondeterminism-perl_1.6.3-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.6.3-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../067-dh-strip-nondeterminism_1.6.3-1_all.deb ... Unpacking dh-strip-nondeterminism (1.6.3-1) ... Selecting previously unselected package dwz. Preparing to unpack .../068-dwz_0.13-4_armhf.deb ... Unpacking dwz (0.13-4) ... Selecting previously unselected package libcroco3:armhf. Preparing to unpack .../069-libcroco3_0.6.13-1_armhf.deb ... Unpacking libcroco3:armhf (0.6.13-1) ... Selecting previously unselected package gettext. Preparing to unpack .../070-gettext_0.19.8.1-10_armhf.deb ... Unpacking gettext (0.19.8.1-10) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../071-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../072-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../073-debhelper_12.7.1ubuntu1_all.deb ... Unpacking debhelper (12.7.1ubuntu1) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../074-python3-lib2to3_3.8.0-1_all.deb ... Unpacking python3-lib2to3 (3.8.0-1) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../075-python3-distutils_3.8.0-1_all.deb ... Unpacking python3-distutils (3.8.0-1) ... Selecting previously unselected package dh-python. Preparing to unpack .../076-dh-python_4.20191017ubuntu1_all.deb ... Unpacking dh-python (4.20191017ubuntu1) ... Selecting previously unselected package xml-core. Preparing to unpack .../077-xml-core_0.18+nmu1_all.deb ... Unpacking xml-core (0.18+nmu1) ... Selecting previously unselected package docutils-common. Preparing to unpack .../078-docutils-common_0.15.2+dfsg-1_all.deb ... Unpacking docutils-common (0.15.2+dfsg-1) ... Selecting previously unselected package libllvm9:armhf. Preparing to unpack .../079-libllvm9_1%3a9.0.0-4ubuntu4_armhf.deb ... Unpacking libllvm9:armhf (1:9.0.0-4ubuntu4) ... Selecting previously unselected package libclang1-9. Preparing to unpack .../080-libclang1-9_1%3a9.0.0-4ubuntu4_armhf.deb ... Unpacking libclang1-9 (1:9.0.0-4ubuntu4) ... Selecting previously unselected package libxapian30:armhf. Preparing to unpack .../081-libxapian30_1.4.12-1_armhf.deb ... Unpacking libxapian30:armhf (1.4.12-1) ... Selecting previously unselected package doxygen. Preparing to unpack .../082-doxygen_1.8.13-12_armhf.deb ... Unpacking doxygen (1.8.13-12) ... Selecting previously unselected package fontconfig. Preparing to unpack .../083-fontconfig_2.13.1-2ubuntu2_armhf.deb ... Unpacking fontconfig (2.13.1-2ubuntu2) ... Selecting previously unselected package fonts-lmodern. Preparing to unpack .../084-fonts-lmodern_2.004.5-6_all.deb ... Unpacking fonts-lmodern (2.004.5-6) ... Selecting previously unselected package hicolor-icon-theme. Preparing to unpack .../085-hicolor-icon-theme_0.17-2_all.deb ... Unpacking hicolor-icon-theme (0.17-2) ... Selecting previously unselected package icu-devtools. Preparing to unpack .../086-icu-devtools_63.2-2_armhf.deb ... Unpacking icu-devtools (63.2-2) ... Selecting previously unselected package imagemagick-6.q16. Preparing to unpack .../087-imagemagick-6.q16_8%3a6.9.10.23+dfsg-2.1ubuntu10_armhf.deb ... Unpacking imagemagick-6.q16 (8:6.9.10.23+dfsg-2.1ubuntu10) ... Selecting previously unselected package imagemagick. Preparing to unpack .../088-imagemagick_8%3a6.9.10.23+dfsg-2.1ubuntu10_armhf.deb ... Unpacking imagemagick (8:6.9.10.23+dfsg-2.1ubuntu10) ... Selecting previously unselected package libpaper1:armhf. Preparing to unpack .../089-libpaper1_1.1.28_armhf.deb ... Unpacking libpaper1:armhf (1.1.28) ... Selecting previously unselected package libpaper-utils. Preparing to unpack .../090-libpaper-utils_1.1.28_armhf.deb ... Unpacking libpaper-utils (1.1.28) ... Selecting previously unselected package libkpathsea6:armhf. Preparing to unpack .../091-libkpathsea6_2019.20190605.51237-3_armhf.deb ... Unpacking libkpathsea6:armhf (2019.20190605.51237-3) ... Selecting previously unselected package libptexenc1:armhf. Preparing to unpack .../092-libptexenc1_2019.20190605.51237-3_armhf.deb ... Unpacking libptexenc1:armhf (2019.20190605.51237-3) ... Selecting previously unselected package libsynctex2:armhf. Preparing to unpack .../093-libsynctex2_2019.20190605.51237-3_armhf.deb ... Unpacking libsynctex2:armhf (2019.20190605.51237-3) ... Selecting previously unselected package libtexlua53:armhf. Preparing to unpack .../094-libtexlua53_2019.20190605.51237-3_armhf.deb ... Unpacking libtexlua53:armhf (2019.20190605.51237-3) ... Selecting previously unselected package libtexluajit2:armhf. Preparing to unpack .../095-libtexluajit2_2019.20190605.51237-3_armhf.deb ... Unpacking libtexluajit2:armhf (2019.20190605.51237-3) ... Selecting previously unselected package t1utils. Preparing to unpack .../096-t1utils_1.41-3_armhf.deb ... Unpacking t1utils (1.41-3) ... Selecting previously unselected package libpixman-1-0:armhf. Preparing to unpack .../097-libpixman-1-0_0.38.4-0ubuntu1_armhf.deb ... Unpacking libpixman-1-0:armhf (0.38.4-0ubuntu1) ... Selecting previously unselected package libxcb-render0:armhf. Preparing to unpack .../098-libxcb-render0_1.13.1-2_armhf.deb ... Unpacking libxcb-render0:armhf (1.13.1-2) ... Selecting previously unselected package libxcb-shm0:armhf. Preparing to unpack .../099-libxcb-shm0_1.13.1-2_armhf.deb ... Unpacking libxcb-shm0:armhf (1.13.1-2) ... Selecting previously unselected package libxrender1:armhf. Preparing to unpack .../100-libxrender1_1%3a0.9.10-1_armhf.deb ... Unpacking libxrender1:armhf (1:0.9.10-1) ... Selecting previously unselected package libcairo2:armhf. Preparing to unpack .../101-libcairo2_1.16.0-4_armhf.deb ... Unpacking libcairo2:armhf (1.16.0-4) ... Selecting previously unselected package libgraphite2-3:armhf. Preparing to unpack .../102-libgraphite2-3_1.3.13-11_armhf.deb ... Unpacking libgraphite2-3:armhf (1.3.13-11) ... Selecting previously unselected package libharfbuzz0b:armhf. Preparing to unpack .../103-libharfbuzz0b_2.6.4-1_armhf.deb ... Unpacking libharfbuzz0b:armhf (2.6.4-1) ... Selecting previously unselected package libharfbuzz-icu0:armhf. Preparing to unpack .../104-libharfbuzz-icu0_2.6.4-1_armhf.deb ... Unpacking libharfbuzz-icu0:armhf (2.6.4-1) ... Selecting previously unselected package libteckit0:armhf. Preparing to unpack .../105-libteckit0_2.5.8+ds2-5ubuntu1_armhf.deb ... Unpacking libteckit0:armhf (2.5.8+ds2-5ubuntu1) ... Selecting previously unselected package x11-common. Preparing to unpack .../106-x11-common_1%3a7.7+19ubuntu12_all.deb ... dpkg-query: no packages found matching nux-tools Unpacking x11-common (1:7.7+19ubuntu12) ... Selecting previously unselected package libice6:armhf. Preparing to unpack .../107-libice6_2%3a1.0.10-0ubuntu1_armhf.deb ... Unpacking libice6:armhf (2:1.0.10-0ubuntu1) ... Selecting previously unselected package libsm6:armhf. Preparing to unpack .../108-libsm6_2%3a1.2.3-1_armhf.deb ... Unpacking libsm6:armhf (2:1.2.3-1) ... Selecting previously unselected package libxt6:armhf. Preparing to unpack .../109-libxt6_1%3a1.1.5-1_armhf.deb ... Unpacking libxt6:armhf (1:1.1.5-1) ... Selecting previously unselected package libxmu6:armhf. Preparing to unpack .../110-libxmu6_2%3a1.1.3-0ubuntu1_armhf.deb ... Unpacking libxmu6:armhf (2:1.1.3-0ubuntu1) ... Selecting previously unselected package libxpm4:armhf. Preparing to unpack .../111-libxpm4_1%3a3.5.12-1_armhf.deb ... Unpacking libxpm4:armhf (1:3.5.12-1) ... Selecting previously unselected package libxaw7:armhf. Preparing to unpack .../112-libxaw7_2%3a1.0.13-1_armhf.deb ... Unpacking libxaw7:armhf (2:1.0.13-1) ... Selecting previously unselected package libxi6:armhf. Preparing to unpack .../113-libxi6_2%3a1.7.10-0ubuntu1_armhf.deb ... Unpacking libxi6:armhf (2:1.7.10-0ubuntu1) ... Selecting previously unselected package libzzip-0-13:armhf. Preparing to unpack .../114-libzzip-0-13_0.13.62-3.2_armhf.deb ... Unpacking libzzip-0-13:armhf (0.13.62-3.2) ... Selecting previously unselected package texlive-binaries. Preparing to unpack .../115-texlive-binaries_2019.20190605.51237-3_armhf.deb ... Unpacking texlive-binaries (2019.20190605.51237-3) ... Selecting previously unselected package xdg-utils. Preparing to unpack .../116-xdg-utils_1.1.3-1ubuntu2_all.deb ... Unpacking xdg-utils (1.1.3-1ubuntu2) ... Selecting previously unselected package texlive-base. Preparing to unpack .../117-texlive-base_2019.20191112-1_all.deb ... Unpacking texlive-base (2019.20191112-1) ... Selecting previously unselected package texlive-latex-base. Preparing to unpack .../118-texlive-latex-base_2019.20191112-1_all.deb ... Unpacking texlive-latex-base (2019.20191112-1) ... Selecting previously unselected package latexmk. Preparing to unpack .../119-latexmk_1%3a4.65-0.2_all.deb ... Unpacking latexmk (1:4.65-0.2) ... Selecting previously unselected package libblas3:armhf. Preparing to unpack .../120-libblas3_3.9.0-1_armhf.deb ... Unpacking libblas3:armhf (3.9.0-1) ... Selecting previously unselected package libboost1.67-dev:armhf. Preparing to unpack .../121-libboost1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost1.67-dev:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-atomic1.67.0:armhf. Preparing to unpack .../122-libboost-atomic1.67.0_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-atomic1.67.0:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-atomic1.67-dev:armhf. Preparing to unpack .../123-libboost-atomic1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-atomic1.67-dev:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-system1.67.0:armhf. Preparing to unpack .../124-libboost-system1.67.0_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-system1.67.0:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-chrono1.67.0:armhf. Preparing to unpack .../125-libboost-chrono1.67.0_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-chrono1.67.0:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-chrono1.67-dev:armhf. Preparing to unpack .../126-libboost-chrono1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-chrono1.67-dev:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-date-time1.67.0:armhf. Preparing to unpack .../127-libboost-date-time1.67.0_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-date-time1.67.0:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-serialization1.67.0:armhf. Preparing to unpack .../128-libboost-serialization1.67.0_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-serialization1.67.0:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-serialization1.67-dev:armhf. Preparing to unpack .../129-libboost-serialization1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-serialization1.67-dev:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-date-time1.67-dev:armhf. Preparing to unpack .../130-libboost-date-time1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-date-time1.67-dev:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-dev:armhf. Preparing to unpack .../131-libboost-dev_1.67.0.2_armhf.deb ... Unpacking libboost-dev:armhf (1.67.0.2) ... Selecting previously unselected package libboost-regex1.67.0:armhf. Preparing to unpack .../132-libboost-regex1.67.0_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-regex1.67.0:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libicu-dev:armhf. Preparing to unpack .../133-libicu-dev_63.2-2_armhf.deb ... Unpacking libicu-dev:armhf (63.2-2) ... Selecting previously unselected package libboost-regex1.67-dev:armhf. Preparing to unpack .../134-libboost-regex1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-regex1.67-dev:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-iostreams1.67.0:armhf. Preparing to unpack .../135-libboost-iostreams1.67.0_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-iostreams1.67.0:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-iostreams1.67-dev:armhf. Preparing to unpack .../136-libboost-iostreams1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-iostreams1.67-dev:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-iostreams-dev:armhf. Preparing to unpack .../137-libboost-iostreams-dev_1.67.0.2_armhf.deb ... Unpacking libboost-iostreams-dev:armhf (1.67.0.2) ... Selecting previously unselected package libboost-python1.67.0. Preparing to unpack .../138-libboost-python1.67.0_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-python1.67.0 (1.67.0-13ubuntu2) ... Selecting previously unselected package libpython2.7:armhf. Preparing to unpack .../139-libpython2.7_2.7.17-1_armhf.deb ... Unpacking libpython2.7:armhf (2.7.17-1) ... Selecting previously unselected package libexpat1-dev:armhf. Preparing to unpack .../140-libexpat1-dev_2.2.9-1_armhf.deb ... Unpacking libexpat1-dev:armhf (2.2.9-1) ... Selecting previously unselected package libpython2.7-dev:armhf. Preparing to unpack .../141-libpython2.7-dev_2.7.17-1_armhf.deb ... Unpacking libpython2.7-dev:armhf (2.7.17-1) ... Selecting previously unselected package libpython2-dev:armhf. Preparing to unpack .../142-libpython2-dev_2.7.17-1_armhf.deb ... Unpacking libpython2-dev:armhf (2.7.17-1) ... Selecting previously unselected package libpython-dev:armhf. Preparing to unpack .../143-libpython-dev_2.7.17-1_armhf.deb ... Unpacking libpython-dev:armhf (2.7.17-1) ... Selecting previously unselected package python2.7-dev. Preparing to unpack .../144-python2.7-dev_2.7.17-1_armhf.deb ... Unpacking python2.7-dev (2.7.17-1) ... Selecting previously unselected package python2-dev. Preparing to unpack .../145-python2-dev_2.7.17-1_armhf.deb ... Unpacking python2-dev (2.7.17-1) ... Selecting previously unselected package python-dev. Preparing to unpack .../146-python-dev_2.7.17-1_armhf.deb ... Unpacking python-dev (2.7.17-1) ... Selecting previously unselected package libpython3.7:armhf. Preparing to unpack .../147-libpython3.7_3.7.5-2_armhf.deb ... Unpacking libpython3.7:armhf (3.7.5-2) ... Selecting previously unselected package libpython3.7-dev:armhf. Preparing to unpack .../148-libpython3.7-dev_3.7.5-2_armhf.deb ... Unpacking libpython3.7-dev:armhf (3.7.5-2) ... Selecting previously unselected package libpython3-dev:armhf. Preparing to unpack .../149-libpython3-dev_3.7.5-1ubuntu1_armhf.deb ... Unpacking libpython3-dev:armhf (3.7.5-1ubuntu1) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../150-zlib1g-dev_1%3a1.2.11.dfsg-1ubuntu3_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-1ubuntu3) ... Selecting previously unselected package python3.7-dev. Preparing to unpack .../151-python3.7-dev_3.7.5-2_armhf.deb ... Unpacking python3.7-dev (3.7.5-2) ... Selecting previously unselected package python3-dev. Preparing to unpack .../152-python3-dev_3.7.5-1ubuntu1_armhf.deb ... Unpacking python3-dev (3.7.5-1ubuntu1) ... Selecting previously unselected package libboost-python1.67-dev. Preparing to unpack .../153-libboost-python1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-python1.67-dev (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-python-dev. Preparing to unpack .../154-libboost-python-dev_1.67.0.2_armhf.deb ... Unpacking libboost-python-dev (1.67.0.2) ... Selecting previously unselected package libboost-regex-dev:armhf. Preparing to unpack .../155-libboost-regex-dev_1.67.0.2_armhf.deb ... Unpacking libboost-regex-dev:armhf (1.67.0.2) ... Selecting previously unselected package libboost-system1.67-dev:armhf. Preparing to unpack .../156-libboost-system1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-system1.67-dev:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-system-dev:armhf. Preparing to unpack .../157-libboost-system-dev_1.67.0.2_armhf.deb ... Unpacking libboost-system-dev:armhf (1.67.0.2) ... Selecting previously unselected package libboost-thread1.67.0:armhf. Preparing to unpack .../158-libboost-thread1.67.0_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-thread1.67.0:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-thread1.67-dev:armhf. Preparing to unpack .../159-libboost-thread1.67-dev_1.67.0-13ubuntu2_armhf.deb ... Unpacking libboost-thread1.67-dev:armhf (1.67.0-13ubuntu2) ... Selecting previously unselected package libboost-thread-dev:armhf. Preparing to unpack .../160-libboost-thread-dev_1.67.0.2_armhf.deb ... Unpacking libboost-thread-dev:armhf (1.67.0.2) ... Selecting previously unselected package libdatrie1:armhf. Preparing to unpack .../161-libdatrie1_0.2.12-3_armhf.deb ... Unpacking libdatrie1:armhf (0.2.12-3) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../162-libgdk-pixbuf2.0-common_2.40.0+dfsg-1ubuntu1_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.40.0+dfsg-1ubuntu1) ... Selecting previously unselected package libgdk-pixbuf2.0-0:armhf. Preparing to unpack .../163-libgdk-pixbuf2.0-0_2.40.0+dfsg-1ubuntu1_armhf.deb ... Unpacking libgdk-pixbuf2.0-0:armhf (2.40.0+dfsg-1ubuntu1) ... Selecting previously unselected package libgfortran5:armhf. Preparing to unpack .../164-libgfortran5_9.2.1-21ubuntu1_armhf.deb ... Unpacking libgfortran5:armhf (9.2.1-21ubuntu1) ... Selecting previously unselected package libimagequant0:armhf. Preparing to unpack .../165-libimagequant0_2.12.2-1.1_armhf.deb ... Unpacking libimagequant0:armhf (2.12.2-1.1) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../166-libjs-jquery_3.3.1~dfsg-3_all.deb ... Unpacking libjs-jquery (3.3.1~dfsg-3) ... Selecting previously unselected package libjs-underscore. Preparing to unpack .../167-libjs-underscore_1.9.1~dfsg-1_all.deb ... Unpacking libjs-underscore (1.9.1~dfsg-1) ... Selecting previously unselected package libjs-sphinxdoc. Preparing to unpack .../168-libjs-sphinxdoc_1.8.5-3_all.deb ... Unpacking libjs-sphinxdoc (1.8.5-3) ... Selecting previously unselected package liblapack3:armhf. Preparing to unpack .../169-liblapack3_3.9.0-1_armhf.deb ... Unpacking liblapack3:armhf (3.9.0-1) ... Selecting previously unselected package libncurses-dev:armhf. Preparing to unpack .../170-libncurses-dev_6.1+20191019-1ubuntu1_armhf.deb ... Unpacking libncurses-dev:armhf (6.1+20191019-1ubuntu1) ... Selecting previously unselected package libthai-data. Preparing to unpack .../171-libthai-data_0.1.28-3_all.deb ... Unpacking libthai-data (0.1.28-3) ... Selecting previously unselected package libthai0:armhf. Preparing to unpack .../172-libthai0_0.1.28-3_armhf.deb ... Unpacking libthai0:armhf (0.1.28-3) ... Selecting previously unselected package libpango-1.0-0:armhf. Preparing to unpack .../173-libpango-1.0-0_1.44.7-1_armhf.deb ... Unpacking libpango-1.0-0:armhf (1.44.7-1) ... Selecting previously unselected package libpangoft2-1.0-0:armhf. Preparing to unpack .../174-libpangoft2-1.0-0_1.44.7-1_armhf.deb ... Unpacking libpangoft2-1.0-0:armhf (1.44.7-1) ... Selecting previously unselected package libpangocairo-1.0-0:armhf. Preparing to unpack .../175-libpangocairo-1.0-0_1.44.7-1_armhf.deb ... Unpacking libpangocairo-1.0-0:armhf (1.44.7-1) ... Selecting previously unselected package libpq5:armhf. Preparing to unpack .../176-libpq5_12.1-1_armhf.deb ... Unpacking libpq5:armhf (12.1-1) ... Selecting previously unselected package libpq-dev. Preparing to unpack .../177-libpq-dev_12.1-1_armhf.deb ... Unpacking libpq-dev (12.1-1) ... Selecting previously unselected package libpython3.8-stdlib:armhf. Preparing to unpack .../178-libpython3.8-stdlib_3.8.0-5_armhf.deb ... Unpacking libpython3.8-stdlib:armhf (3.8.0-5) ... Selecting previously unselected package librsvg2-2:armhf. Preparing to unpack .../179-librsvg2-2_2.46.4-1ubuntu1_armhf.deb ... Unpacking librsvg2-2:armhf (2.46.4-1ubuntu1) ... Selecting previously unselected package librsvg2-bin. Preparing to unpack .../180-librsvg2-bin_2.46.4-1ubuntu1_armhf.deb ... Unpacking librsvg2-bin (2.46.4-1ubuntu1) ... Selecting previously unselected package libschroedinger-maeparser1:armhf. Preparing to unpack .../181-libschroedinger-maeparser1_1.2-1_armhf.deb ... Unpacking libschroedinger-maeparser1:armhf (1.2-1) ... Selecting previously unselected package libschroedinger-coordgenlibs1:armhf. Preparing to unpack .../182-libschroedinger-coordgenlibs1_1.3-1_armhf.deb ... Unpacking libschroedinger-coordgenlibs1:armhf (1.3-1) ... Selecting previously unselected package libschroedinger-coordgenlibs-dev:armhf. Preparing to unpack .../183-libschroedinger-coordgenlibs-dev_1.3-1_armhf.deb ... Unpacking libschroedinger-coordgenlibs-dev:armhf (1.3-1) ... Selecting previously unselected package libschroedinger-maeparser-dev:armhf. Preparing to unpack .../184-libschroedinger-maeparser-dev_1.2-1_armhf.deb ... Unpacking libschroedinger-maeparser-dev:armhf (1.2-1) ... Selecting previously unselected package libsqlite3-dev:armhf. Preparing to unpack .../185-libsqlite3-dev_3.30.1-1ubuntu1_armhf.deb ... Unpacking libsqlite3-dev:armhf (3.30.1-1ubuntu1) ... Selecting previously unselected package libtinfo-dev:armhf. Preparing to unpack .../186-libtinfo-dev_6.1+20191019-1ubuntu1_armhf.deb ... Unpacking libtinfo-dev:armhf (6.1+20191019-1ubuntu1) ... Selecting previously unselected package libwebpdemux2:armhf. Preparing to unpack .../187-libwebpdemux2_0.6.1-2_armhf.deb ... Unpacking libwebpdemux2:armhf (0.6.1-2) ... Selecting previously unselected package llvm-7-runtime. Preparing to unpack .../188-llvm-7-runtime_1%3a7.0.1-9build1_armhf.deb ... Unpacking llvm-7-runtime (1:7.0.1-9build1) ... Selecting previously unselected package llvm-7. Preparing to unpack .../189-llvm-7_1%3a7.0.1-9build1_armhf.deb ... Unpacking llvm-7 (1:7.0.1-9build1) ... Selecting previously unselected package libffi-dev:armhf. Preparing to unpack .../190-libffi-dev_3.2.1-9_armhf.deb ... Unpacking libffi-dev:armhf (3.2.1-9) ... Selecting previously unselected package llvm-7-dev. Preparing to unpack .../191-llvm-7-dev_1%3a7.0.1-9build1_armhf.deb ... Unpacking llvm-7-dev (1:7.0.1-9build1) ... Selecting previously unselected package pandoc-data. Preparing to unpack .../192-pandoc-data_2.5-3_all.deb ... Unpacking pandoc-data (2.5-3) ... Selecting previously unselected package pandoc. Preparing to unpack .../193-pandoc_2.5-3_armhf.deb ... Unpacking pandoc (2.5-3) ... Selecting previously unselected package postgresql-client-common. Preparing to unpack .../194-postgresql-client-common_204ubuntu1_all.deb ... Unpacking postgresql-client-common (204ubuntu1) ... Selecting previously unselected package ssl-cert. Preparing to unpack .../195-ssl-cert_1.0.39_all.deb ... Unpacking ssl-cert (1.0.39) ... Selecting previously unselected package postgresql-common. Preparing to unpack .../196-postgresql-common_204ubuntu1_all.deb ... Adding 'diversion of /usr/bin/pg_config to /usr/bin/pg_config.libpq-dev by postgresql-common' Unpacking postgresql-common (204ubuntu1) ... Selecting previously unselected package postgresql-server-dev-11. Preparing to unpack .../197-postgresql-server-dev-11_11.5-1build1_armhf.deb ... Unpacking postgresql-server-dev-11 (11.5-1build1) ... Selecting previously unselected package postgresql-server-dev-all. Preparing to unpack .../198-postgresql-server-dev-all_204ubuntu1_all.deb ... Unpacking postgresql-server-dev-all (204ubuntu1) ... Selecting previously unselected package preview-latex-style. Preparing to unpack .../199-preview-latex-style_11.91-2ubuntu1_all.deb ... Unpacking preview-latex-style (11.91-2ubuntu1) ... Selecting previously unselected package python-babel-localedata. Preparing to unpack .../200-python-babel-localedata_2.6.0+dfsg.1-1_all.deb ... Unpacking python-babel-localedata (2.6.0+dfsg.1-1) ... Selecting previously unselected package python3-attr. Preparing to unpack .../201-python3-attr_18.2.0-1_all.deb ... Unpacking python3-attr (18.2.0-1) ... Selecting previously unselected package python3-tz. Preparing to unpack .../202-python3-tz_2019.3-1_all.deb ... Unpacking python3-tz (2019.3-1) ... Selecting previously unselected package python3-babel. Preparing to unpack .../203-python3-babel_2.6.0+dfsg.1-1_all.deb ... Unpacking python3-babel (2.6.0+dfsg.1-1) ... Selecting previously unselected package python3-certifi. Preparing to unpack .../204-python3-certifi_2018.8.24-1_all.deb ... Unpacking python3-certifi (2018.8.24-1) ... Selecting previously unselected package python3-chardet. Preparing to unpack .../205-python3-chardet_3.0.4-4_all.deb ... Unpacking python3-chardet (3.0.4-4) ... Selecting previously unselected package python3-commonmark-bkrs. Preparing to unpack .../206-python3-commonmark-bkrs_0.5.4+ds-4_all.deb ... Unpacking python3-commonmark-bkrs (0.5.4+ds-4) ... Selecting previously unselected package python3-dateutil. Preparing to unpack .../207-python3-dateutil_2.7.3-3_all.deb ... Unpacking python3-dateutil (2.7.3-3) ... Selecting previously unselected package python3-roman. Preparing to unpack .../208-python3-roman_2.0.0-3_all.deb ... Unpacking python3-roman (2.0.0-3) ... Selecting previously unselected package python3-docutils. Preparing to unpack .../209-python3-docutils_0.15.2+dfsg-1_all.deb ... Unpacking python3-docutils (0.15.2+dfsg-1) ... Selecting previously unselected package python3-idna. Preparing to unpack .../210-python3-idna_2.6-2_all.deb ... Unpacking python3-idna (2.6-2) ... Selecting previously unselected package python3-imagesize. Preparing to unpack .../211-python3-imagesize_1.0.0-1_all.deb ... Unpacking python3-imagesize (1.0.0-1) ... Selecting previously unselected package python3-markupsafe. Preparing to unpack .../212-python3-markupsafe_1.1.0-1build1_armhf.deb ... Unpacking python3-markupsafe (1.1.0-1build1) ... Selecting previously unselected package python3-jinja2. Preparing to unpack .../213-python3-jinja2_2.10-2ubuntu1_all.deb ... Unpacking python3-jinja2 (2.10-2ubuntu1) ... Selecting previously unselected package python3.8. Preparing to unpack .../214-python3.8_3.8.0-5_armhf.deb ... Unpacking python3.8 (3.8.0-5) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../215-python3-numpy_1%3a1.17.4-3ubuntu2_armhf.deb ... Unpacking python3-numpy (1:1.17.4-3ubuntu2) ... Selecting previously unselected package python3-pyparsing. Preparing to unpack .../216-python3-pyparsing_2.4.2-1_all.deb ... Unpacking python3-pyparsing (2.4.2-1) ... Selecting previously unselected package python3-packaging. Preparing to unpack .../217-python3-packaging_19.1-2_all.deb ... Unpacking python3-packaging (19.1-2) ... Selecting previously unselected package python3-pandas-lib. Preparing to unpack .../218-python3-pandas-lib_0.25.3+dfsg-4_armhf.deb ... Unpacking python3-pandas-lib (0.25.3+dfsg-4) ... Selecting previously unselected package python3-pandas. Preparing to unpack .../219-python3-pandas_0.25.3+dfsg-4_all.deb ... Unpacking python3-pandas (0.25.3+dfsg-4) ... Selecting previously unselected package python3-pil:armhf. Preparing to unpack .../220-python3-pil_6.2.1-2_armhf.deb ... Unpacking python3-pil:armhf (6.2.1-2) ... Selecting previously unselected package python3-pygments. Preparing to unpack .../221-python3-pygments_2.3.1+dfsg-1ubuntu1_all.deb ... Unpacking python3-pygments (2.3.1+dfsg-1ubuntu1) ... Selecting previously unselected package python3-recommonmark. Preparing to unpack .../222-python3-recommonmark_0.4.0+ds-6_all.deb ... Unpacking python3-recommonmark (0.4.0+ds-6) ... Selecting previously unselected package python3-urllib3. Preparing to unpack .../223-python3-urllib3_1.24.1-1ubuntu1_all.deb ... Unpacking python3-urllib3 (1.24.1-1ubuntu1) ... Selecting previously unselected package python3-requests. Preparing to unpack .../224-python3-requests_2.21.0-1_all.deb ... Unpacking python3-requests (2.21.0-1) ... Selecting previously unselected package sphinx-common. Preparing to unpack .../225-sphinx-common_1.8.5-3_all.deb ... Unpacking sphinx-common (1.8.5-3) ... Selecting previously unselected package python3-alabaster. Preparing to unpack .../226-python3-alabaster_0.7.8-1_all.deb ... Unpacking python3-alabaster (0.7.8-1) ... Selecting previously unselected package python3-sphinx. Preparing to unpack .../227-python3-sphinx_1.8.5-3_all.deb ... Unpacking python3-sphinx (1.8.5-3) ... Selecting previously unselected package rapidjson-dev. Preparing to unpack .../228-rapidjson-dev_1.1.0+dfsg2-5_all.deb ... Unpacking rapidjson-dev (1.1.0+dfsg2-5) ... Selecting previously unselected package texlive-fonts-recommended. Preparing to unpack .../229-texlive-fonts-recommended_2019.20191112-1_all.deb ... Unpacking texlive-fonts-recommended (2019.20191112-1) ... Selecting previously unselected package texlive-latex-recommended. Preparing to unpack .../230-texlive-latex-recommended_2019.20191112-1_all.deb ... Unpacking texlive-latex-recommended (2019.20191112-1) ... Selecting previously unselected package texlive-pictures. Preparing to unpack .../231-texlive-pictures_2019.20191112-1_all.deb ... Unpacking texlive-pictures (2019.20191112-1) ... Selecting previously unselected package texlive-latex-extra. Preparing to unpack .../232-texlive-latex-extra_2019.20191112-1_all.deb ... Unpacking texlive-latex-extra (2019.20191112-1) ... Selecting previously unselected package sbuild-build-depends-rdkit-dummy. Preparing to unpack .../233-sbuild-build-depends-rdkit-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-rdkit-dummy (0.invalid.0) ... Setting up libboost1.67-dev:armhf (1.67.0-13ubuntu2) ... Setting up libpipeline1:armhf (1.5.1-2) ... Setting up libgraphite2-3:armhf (1.3.13-11) ... Setting up liblcms2-2:armhf (2.9-4) ... Setting up libpixman-1-0:armhf (0.38.4-0ubuntu1) ... Setting up libxapian30:armhf (1.4.12-1) ... Setting up libxau6:armhf (1:1.0.9-0ubuntu1) ... Setting up imagemagick-6-common (8:6.9.10.23+dfsg-2.1ubuntu10) ... Setting up libkeyutils1:armhf (1.6-6ubuntu1) ... Setting up libncurses-dev:armhf (6.1+20191019-1ubuntu1) ... Setting up libpsl5:armhf (0.20.2-2) ... Setting up libpython3.8-minimal:armhf (3.8.0-5) ... Setting up mime-support (3.64ubuntu1) ... Setting up hicolor-icon-theme (0.17-2) ... Setting up libdatrie1:armhf (0.2.12-3) ... Setting up libmagic-mgc (1:5.37-6) ... Setting up libtexlua53:armhf (2019.20190605.51237-3) ... Setting up libarchive-zip-perl (1.67-1) ... Setting up libgc1c2:armhf (1:7.6.4-0.4) ... Setting up libglib2.0-0:armhf (2.63.1-2) ... No schema files found: doing nothing. Setting up distro-info-data (0.40ubuntu3) ... Setting up libtexluajit2:armhf (2019.20190605.51237-3) ... Setting up libdebhelper-perl (12.7.1ubuntu1) ... Setting up libgdk-pixbuf2.0-common (2.40.0+dfsg-1ubuntu1) ... Setting up x11-common (1:7.7+19ubuntu12) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libnghttp2-14:armhf (1.40.0-1) ... Setting up libmagic1:armhf (1:5.37-6) ... Setting up gettext-base (0.19.8.1-10) ... Setting up libobjc4:armhf (9.2.1-21ubuntu1) ... Setting up libzzip-0-13:armhf (0.13.62-3.2) ... Setting up libboost-date-time1.67.0:armhf (1.67.0-13ubuntu2) ... Setting up file (1:5.37-6) ... Setting up libffi-dev:armhf (3.2.1-9) ... Setting up libldap-common (2.4.48+dfsg-1ubuntu3) ... Setting up libjbig0:armhf (2.1-3.1build1) ... Setting up libicu63:armhf (63.2-2) ... Setting up python-babel-localedata (2.6.0+dfsg.1-1) ... Setting up rapidjson-dev (1.1.0+dfsg2-5) ... Setting up libkrb5support0:armhf (1.17-6) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-1build3) ... Setting up libpython2.7-stdlib:armhf (2.7.17-1) ... Setting up autotools-dev (20180224.1) ... Setting up libblas3:armhf (3.9.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libuv1:armhf (1.33.1-2) ... Setting up libexpat1-dev:armhf (2.2.9-1) ... Setting up libsqlite3-dev:armhf (3.30.1-1ubuntu1) ... Setting up libfreetype6:armhf (2.10.1-2) ... Setting up libx11-data (2:1.6.8-1) ... Setting up ssl-cert (1.0.39) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2build1) ... Setting up libteckit0:armhf (2.5.8+ds2-5ubuntu1) ... Setting up libsigsegv2:armhf (2.12-2) ... Setting up libfribidi0:armhf (1.0.7-1.1) ... Setting up t1utils (1.41-3) ... Setting up libimagequant0:armhf (2.12.2-1.1) ... Setting up autopoint (0.19.8.1-10) ... Setting up binfmt-support (2.2.0-2) ... Created symlink /etc/systemd/system/multi-user.target.wants/binfmt-support.service → /lib/systemd/system/binfmt-support.service. Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libwebp6:armhf (0.6.1-2) ... Setting up icu-devtools (63.2-2) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up libboost-iostreams1.67.0:armhf (1.67.0-13ubuntu2) ... Setting up ucf (3.0038+nmu1) ... Setting up libk5crypto3:armhf (1.17-6) ... Setting up libjpeg-turbo8:armhf (2.0.3-0ubuntu1) ... Setting up libobjc-9-dev:armhf (9.2.1-21ubuntu1) ... Setting up libltdl7:armhf (2.4.6-11) ... Setting up libfftw3-double3:armhf (3.3.8-2ubuntu1) ... Setting up libkpathsea6:armhf (2019.20190605.51237-3) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-1build3) ... Setting up libgfortran5:armhf (9.2.1-21ubuntu1) ... Setting up libroken18-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1ubuntu3) ... Setting up python3.8-minimal (3.8.0-5) ... Setting up liblqr-1-0:armhf (0.4.2-2.1) ... Setting up librhash0:armhf (1.3.8-1) ... Setting up libuchardet0:armhf (0.0.6-3) ... Setting up libboost-python1.67.0 (1.67.0-13ubuntu2) ... Setting up fonts-lmodern (2.004.5-6) ... Setting up libsub-override-perl (0.09-2) ... Setting up libharfbuzz0b:armhf (2.6.4-1) ... Setting up libthai-data (0.1.28-3) ... Setting up netbase (5.6) ... Setting up libboost-atomic1.67.0:armhf (1.67.0-13ubuntu2) ... Setting up sgml-base (1.29.1) ... Setting up cmake-data (3.13.4-1build1) ... Setting up libkrb5-3:armhf (1.17-6) ... Setting up libboost-dev:armhf (1.67.0.2) ... Setting up libmpdec2:armhf (2.4.2-2) ... Setting up pandoc-data (2.5-3) ... Setting up libjs-jquery (3.3.1~dfsg-3) ... Setting up libboost-system1.67.0:armhf (1.67.0-13ubuntu2) ... Setting up libpython3.8-stdlib:armhf (3.8.0-5) ... Setting up python3.8 (3.8.0-5) ... Setting up libboost-serialization1.67.0:armhf (1.67.0-13ubuntu2) ... Setting up libwebpmux3:armhf (0.6.1-2) ... Setting up libbsd0:armhf (0.10.0-1) ... Setting up libelf1:armhf (0.176-1.1) ... Setting up libicu-dev:armhf (63.2-2) ... Setting up libxml2:armhf (2.9.4+dfsg1-7ubuntu5) ... Setting up xdg-utils (1.1.3-1ubuntu2) ... Setting up dctrl-tools (2.24-3) ... Setting up libjsoncpp1:armhf (1.7.4-3) ... Setting up libsynctex2:armhf (2019.20190605.51237-3) ... Setting up libheimbase1-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libjs-underscore (1.9.1~dfsg-1) ... Setting up libjpeg8:armhf (8c-2ubuntu8) ... Setting up libboost-atomic1.67-dev:armhf (1.67.0-13ubuntu2) ... Setting up postgresql-client-common (204ubuntu1) ... Setting up libfile-stripnondeterminism-perl (1.6.3-1) ... Setting up libtinfo-dev:armhf (6.1+20191019-1ubuntu1) ... Setting up libboost-serialization1.67-dev:armhf (1.67.0-13ubuntu2) ... Setting up libpaper1:armhf (1.1.28) ... Creating config file /etc/papersize with new version Setting up libice6:armhf (2:1.0.10-0ubuntu1) ... Setting up libxdmcp6:armhf (1:1.1.3-0ubuntu1) ... Setting up libpython3.7-stdlib:armhf (3.7.5-2) ... Setting up libpython2.7:armhf (2.7.17-1) ... Setting up liblapack3:armhf (3.9.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libpython2.7-dev:armhf (2.7.17-1) ... Setting up libxcb1:armhf (1.13.1-2) ... Setting up libboost-regex1.67.0:armhf (1.67.0-13ubuntu2) ... Setting up libharfbuzz-icu0:armhf (2.6.4-1) ... Setting up libboost-chrono1.67.0:armhf (1.67.0-13ubuntu2) ... Setting up python2.7 (2.7.17-1) ... Setting up libboost-thread1.67.0:armhf (1.67.0-13ubuntu2) ... Setting up libpython3.7:armhf (3.7.5-2) ... Setting up libtool (2.4.6-11) ... Setting up libpython2-stdlib:armhf (2.7.17-1) ... Setting up libarchive13:armhf (3.4.0-1build1) ... Setting up libxcb-render0:armhf (1.13.1-2) ... Setting up libboost-regex1.67-dev:armhf (1.67.0-13ubuntu2) ... Setting up fontconfig-config (2.13.1-2ubuntu2) ... Setting up libpython3.7-dev:armhf (3.7.5-2) ... Setting up libwebpdemux2:armhf (0.6.1-2) ... Setting up libasn1-8-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libedit2:armhf (3.1-20191025-1) ... Setting up m4 (1.4.18-4) ... Setting up libxcb-shm0:armhf (1.13.1-2) ... Setting up libpaper-utils (1.1.28) ... Setting up libhcrypto4-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up python2 (2.7.17-1) ... Setting up libschroedinger-maeparser1:armhf (1.2-1) ... Setting up tex-common (6.13) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libthai0:armhf (0.1.28-3) ... Setting up libpython-stdlib:armhf (2.7.17-1) ... Setting up libboost-date-time1.67-dev:armhf (1.67.0-13ubuntu2) ... Setting up libwind0-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libboost-chrono1.67-dev:armhf (1.67.0-13ubuntu2) ... Setting up libptexenc1:armhf (2019.20190605.51237-3) ... Setting up pandoc (2.5-3) ... Setting up shared-mime-info (1.10-1) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up postgresql-common (204ubuntu1) ... Adding user postgres to group ssl-cert Creating config file /etc/postgresql-common/createcluster.conf with new version Building PostgreSQL dictionaries from installed myspell/hunspell packages... Removing obsolete dictionary files: Created symlink /etc/systemd/system/multi-user.target.wants/postgresql.service → /lib/systemd/system/postgresql.service. Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libgssapi-krb5-2:armhf (1.17-6) ... Setting up libcroco3:armhf (0.6.13-1) ... Setting up libjs-sphinxdoc (1.8.5-3) ... Setting up libssh-4:armhf (0.9.0-1ubuntu1) ... Setting up autoconf (2.69-11ubuntu1) ... Setting up dh-strip-nondeterminism (1.6.3-1) ... Setting up dwz (0.13-4) ... Setting up groff-base (1.22.4-3) ... Setting up xml-core (0.18+nmu1) ... Setting up bison (2:3.4.2+dfsg-1) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up libllvm7:armhf (1:7.0.1-9build1) ... Setting up libx11-6:armhf (2:1.6.8-1) ... Setting up libpython2-dev:armhf (2.7.17-1) ... Setting up libboost-system1.67-dev:armhf (1.67.0-13ubuntu2) ... Setting up libtiff5:armhf (4.1.0+git191117-1) ... Setting up libfontconfig1:armhf (2.13.1-2ubuntu2) ... Setting up libclang1-7 (1:7.0.1-9build1) ... Setting up libboost-regex-dev:armhf (1.67.0.2) ... Setting up libsm6:armhf (2:1.2.3-1) ... Setting up python (2.7.17-1) ... Setting up libboost-iostreams1.67-dev:armhf (1.67.0-13ubuntu2) ... Setting up libllvm9:armhf (1:9.0.0-4ubuntu4) ... Setting up libpython3-stdlib:armhf (3.7.5-1ubuntu1) ... Setting up libschroedinger-maeparser-dev:armhf (1.2-1) ... Setting up python2.7-dev (2.7.17-1) ... Setting up automake (1:1.16.1-4ubuntu3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3.7 (3.7.5-2) ... Setting up fontconfig (2.13.1-2ubuntu2) ... Regenerating fonts cache... done. Setting up flex (2.6.4-6.2) ... Setting up gettext (0.19.8.1-10) ... Setting up libpython3-dev:armhf (3.7.5-1ubuntu1) ... Setting up python2-dev (2.7.17-1) ... Setting up libxpm4:armhf (1:3.5.12-1) ... Setting up llvm-7-runtime (1:7.0.1-9build1) ... Setting up llvm-7 (1:7.0.1-9build1) ... Setting up libxrender1:armhf (1:0.9.10-1) ... Setting up libboost-thread1.67-dev:armhf (1.67.0-13ubuntu2) ... Setting up libclang1-9 (1:9.0.0-4ubuntu4) ... Setting up libhx509-5-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up preview-latex-style (11.91-2ubuntu1) ... Setting up libboost-system-dev:armhf (1.67.0.2) ... Setting up libpango-1.0-0:armhf (1.44.7-1) ... Setting up libxext6:armhf (2:1.3.4-0ubuntu1) ... Setting up libschroedinger-coordgenlibs1:armhf (1.3-1) ... Setting up python3 (3.7.5-1ubuntu1) ... Setting up libboost-iostreams-dev:armhf (1.67.0.2) ... Setting up man-db (2.9.0-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up python3-markupsafe (1.1.0-1build1) ... Setting up python3.7-dev (3.7.5-2) ... Setting up libcairo2:armhf (1.16.0-4) ... Setting up python3-tz (2019.3-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libpython-dev:armhf (2.7.17-1) ... Setting up python3-six (1.12.0-2build1) ... Setting up python3-pil:armhf (6.2.1-2) ... Setting up libmagickcore-6.q16-6:armhf (8:6.9.10.23+dfsg-2.1ubuntu10) ... Setting up python3-roman (2.0.0-3) ... Setting up python3-jinja2 (2.10-2ubuntu1) ... Setting up python3-pygments (2.3.1+dfsg-1ubuntu1) ... Setting up doxygen (1.8.13-12) ... Setting up python3-pyparsing (2.4.2-1) ... Setting up python3-certifi (2018.8.24-1) ... Setting up libgdk-pixbuf2.0-0:armhf (2.40.0+dfsg-1ubuntu1) ... Setting up sphinx-common (1.8.5-3) ... Setting up python3-idna (2.6-2) ... Setting up libxt6:armhf (1:1.1.5-1) ... Setting up python3-urllib3 (1.24.1-1ubuntu1) ... Setting up python3-commonmark-bkrs (0.5.4+ds-4) ... Setting up libclang-common-7-dev (1:7.0.1-9build1) ... Setting up libmagickwand-6.q16-6:armhf (8:6.9.10.23+dfsg-2.1ubuntu10) ... Setting up python3-dateutil (2.7.3-3) ... Setting up libpangoft2-1.0-0:armhf (1.44.7-1) ... Setting up lsb-release (11.1.0ubuntu1) ... Setting up python3-lib2to3 (3.8.0-1) ... Setting up libboost-thread-dev:armhf (1.67.0.2) ... Setting up libpangocairo-1.0-0:armhf (1.44.7-1) ... Setting up python-dev (2.7.17-1) ... Setting up python3-imagesize (1.0.0-1) ... Setting up libkrb5-26-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up python3-pkg-resources (41.4.0-1) ... Setting up python3-distutils (3.8.0-1) ... Setting up dh-python (4.20191017ubuntu1) ... Setting up clang-7 (1:7.0.1-9build1) ... Setting up python3-attr (18.2.0-1) ... Setting up llvm-7-dev (1:7.0.1-9build1) ... Setting up libxmu6:armhf (2:1.1.3-0ubuntu1) ... Setting up libxi6:armhf (2:1.7.10-0ubuntu1) ... Setting up python3-babel (2.6.0+dfsg.1-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up libschroedinger-coordgenlibs-dev:armhf (1.3-1) ... Setting up python3-alabaster (0.7.8-1) ... Setting up po-debconf (1.0.21) ... Setting up libxaw7:armhf (2:1.0.13-1) ... Setting up libheimntlm0-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up librsvg2-2:armhf (2.46.4-1ubuntu1) ... Setting up python3-packaging (19.1-2) ... Setting up python3-chardet (3.0.4-4) ... Setting up libgssapi3-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up python3-dev (3.7.5-1ubuntu1) ... Setting up python3-requests (2.21.0-1) ... Setting up python3-numpy (1:1.17.4-3ubuntu2) ... Setting up imagemagick-6.q16 (8:6.9.10.23+dfsg-2.1ubuntu10) ... update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode Setting up texlive-binaries (2019.20190605.51237-3) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up libboost-python1.67-dev (1.67.0-13ubuntu2) ... Setting up texlive-base (2019.20191112-1) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/config/pdftexconfig.tex Setting up librsvg2-bin (2.46.4-1ubuntu1) ... Setting up python3-pandas-lib (0.25.3+dfsg-4) ... Setting up libldap-2.4-2:armhf (2.4.48+dfsg-1ubuntu3) ... Setting up libboost-python-dev (1.67.0.2) ... Setting up python3-pandas (0.25.3+dfsg-4) ... /usr/lib/python3/dist-packages/pandas/tests/frame/test_alter_axes.py:241: SyntaxWarning: "is" with a literal. Did you mean "=="? False if (keys[0] is "A" and keys[1] is "A") else drop # noqa: F632 /usr/lib/python3/dist-packages/pandas/tests/frame/test_alter_axes.py:241: SyntaxWarning: "is" with a literal. Did you mean "=="? False if (keys[0] is "A" and keys[1] is "A") else drop # noqa: F632 Setting up texlive-latex-base (2019.20191112-1) ... Setting up texlive-latex-recommended (2019.20191112-1) ... Setting up texlive-pictures (2019.20191112-1) ... Setting up imagemagick (8:6.9.10.23+dfsg-2.1ubuntu10) ... Setting up texlive-fonts-recommended (2019.20191112-1) ... Setting up libcurl4:armhf (7.65.3-1ubuntu4) ... Setting up libpq5:armhf (12.1-1) ... Setting up latexmk (1:4.65-0.2) ... Setting up texlive-latex-extra (2019.20191112-1) ... Setting up libpq-dev (12.1-1) ... Setting up postgresql-server-dev-11 (11.5-1build1) ... Setting up cmake (3.13.4-1build1) ... Setting up postgresql-server-dev-all (204ubuntu1) ... Setting up debhelper (12.7.1ubuntu1) ... Setting up dh-autoreconf (19) ... Processing triggers for libc-bin (2.30-0ubuntu2) ... Processing triggers for systemd (243-3ubuntu1) ... Processing triggers for sgml-base (1.29.1) ... Setting up docutils-common (0.15.2+dfsg-1) ... Processing triggers for sgml-base (1.29.1) ... Setting up python3-docutils (0.15.2+dfsg-1) ... update-alternatives: using /usr/share/docutils/scripts/python3/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html4 to provide /usr/bin/rst2html4 (rst2html4) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html5 to provide /usr/bin/rst2html5 (rst2html5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode Setting up python3-recommonmark (0.4.0+ds-6) ... Setting up python3-sphinx (1.8.5-3) ... update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-apidoc to provide /usr/bin/sphinx-apidoc (sphinx-apidoc) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-autogen to provide /usr/bin/sphinx-autogen (sphinx-autogen) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-build to provide /usr/bin/sphinx-build (sphinx-build) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-quickstart to provide /usr/bin/sphinx-quickstart (sphinx-quickstart) in auto mode Setting up sbuild-build-depends-rdkit-dummy (0.invalid.0) ... Processing triggers for tex-common (6.13) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-170-generic arm64 (armv7l) Toolchain package versions: binutils_2.33.1-1ubuntu1 dpkg-dev_1.19.7ubuntu2 g++-9_9.2.1-21ubuntu1 gcc-9_9.2.1-21ubuntu1 libc6-dev_2.30-0ubuntu2 libstdc++-9-dev_9.2.1-21ubuntu1 libstdc++6_9.2.1-21ubuntu1 linux-libc-dev_5.3.0-24.26 Package versions: adduser_3.118ubuntu1 advancecomp_2.1-2.1 apt_1.9.4 autoconf_2.69-11ubuntu1 automake_1:1.16.1-4ubuntu3 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11ubuntu2 base-passwd_3.5.46 bash_5.0-5ubuntu1 binfmt-support_2.2.0-2 binutils_2.33.1-1ubuntu1 binutils-arm-linux-gnueabihf_2.33.1-1ubuntu1 binutils-common_2.33.1-1ubuntu1 bison_2:3.4.2+dfsg-1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.34-0.1ubuntu2 build-essential_12.8ubuntu1 bzip2_1.0.8-2 ca-certificates_20190110 clang-7_1:7.0.1-9build1 cmake_3.13.4-1build1 cmake-data_3.13.4-1build1 coreutils_8.30-3ubuntu2 cpp_4:9.2.1-3.1ubuntu1 cpp-9_9.2.1-21ubuntu1 dash_0.5.10.2-6 dctrl-tools_2.24-3 debconf_1.5.73 debhelper_12.7.1ubuntu1 debianutils_4.9.1 dh-autoreconf_19 dh-python_4.20191017ubuntu1 dh-strip-nondeterminism_1.6.3-1 diffutils_1:3.7-3 distro-info-data_0.40ubuntu3 docutils-common_0.15.2+dfsg-1 doxygen_1.8.13-12 dpkg_1.19.7ubuntu2 dpkg-dev_1.19.7ubuntu2 dwz_0.13-4 e2fsprogs_1.45.3-4ubuntu2 fakeroot_1.24-1 fdisk_2.34-0.1ubuntu2 file_1:5.37-6 findutils_4.6.0+git+20190209-2ubuntu1 flex_2.6.4-6.2 fontconfig_2.13.1-2ubuntu2 fontconfig-config_2.13.1-2ubuntu2 fonts-dejavu-core_2.37-1 fonts-lmodern_2.004.5-6 g++_4:9.2.1-3.1ubuntu1 g++-9_9.2.1-21ubuntu1 gcc_4:9.2.1-3.1ubuntu1 gcc-9_9.2.1-21ubuntu1 gcc-9-base_9.2.1-21ubuntu1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpg_2.2.17-3ubuntu1 gpg-agent_2.2.17-3ubuntu1 gpgconf_2.2.17-3ubuntu1 gpgv_2.2.17-3ubuntu1 grep_3.3-1build1 groff-base_1.22.4-3 gzip_1.10-0ubuntu3 hicolor-icon-theme_0.17-2 hostname_3.23 icu-devtools_63.2-2 imagemagick_8:6.9.10.23+dfsg-2.1ubuntu10 imagemagick-6-common_8:6.9.10.23+dfsg-2.1ubuntu10 imagemagick-6.q16_8:6.9.10.23+dfsg-2.1ubuntu10 init_1.57 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 latexmk_1:4.65-0.2 libacl1_2.2.53-5 libapparmor1_2.13.3-5ubuntu5 libapt-pkg5.90_1.9.4 libarchive-zip-perl_1.67-1 libarchive13_3.4.0-1build1 libargon2-1_0~20171227-0.2 libasan5_9.2.1-21ubuntu1 libasn1-8-heimdal_7.5.0+dfsg-3build1 libassuan0_2.5.3-7ubuntu1 libatomic1_9.2.1-21ubuntu1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2ubuntu3 libaudit1_1:2.8.5-2ubuntu3 libbinutils_2.33.1-1ubuntu1 libblas3_3.9.0-1 libblkid1_2.34-0.1ubuntu2 libboost-atomic1.67-dev_1.67.0-13ubuntu2 libboost-atomic1.67.0_1.67.0-13ubuntu2 libboost-chrono1.67-dev_1.67.0-13ubuntu2 libboost-chrono1.67.0_1.67.0-13ubuntu2 libboost-date-time1.67-dev_1.67.0-13ubuntu2 libboost-date-time1.67.0_1.67.0-13ubuntu2 libboost-dev_1.67.0.2 libboost-iostreams-dev_1.67.0.2 libboost-iostreams1.67-dev_1.67.0-13ubuntu2 libboost-iostreams1.67.0_1.67.0-13ubuntu2 libboost-python-dev_1.67.0.2 libboost-python1.67-dev_1.67.0-13ubuntu2 libboost-python1.67.0_1.67.0-13ubuntu2 libboost-regex-dev_1.67.0.2 libboost-regex1.67-dev_1.67.0-13ubuntu2 libboost-regex1.67.0_1.67.0-13ubuntu2 libboost-serialization1.67-dev_1.67.0-13ubuntu2 libboost-serialization1.67.0_1.67.0-13ubuntu2 libboost-system-dev_1.67.0.2 libboost-system1.67-dev_1.67.0-13ubuntu2 libboost-system1.67.0_1.67.0-13ubuntu2 libboost-thread-dev_1.67.0.2 libboost-thread1.67-dev_1.67.0-13ubuntu2 libboost-thread1.67.0_1.67.0-13ubuntu2 libboost1.67-dev_1.67.0-13ubuntu2 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.30-0ubuntu2 libc-dev-bin_2.30-0ubuntu2 libc6_2.30-0ubuntu2 libc6-dev_2.30-0ubuntu2 libcairo2_1.16.0-4 libcap-ng0_0.7.9-2.1 libcap2_1:2.27-1 libcc1-0_9.2.1-21ubuntu1 libclang-common-7-dev_1:7.0.1-9build1 libclang1-7_1:7.0.1-9build1 libclang1-9_1:9.0.0-4ubuntu4 libcom-err2_1.45.3-4ubuntu2 libcroco3_0.6.13-1 libcryptsetup12_2:2.2.2-1ubuntu1 libcurl4_7.65.3-1ubuntu4 libdatrie1_0.2.12-3 libdb5.3_5.3.28+dfsg1-0.6ubuntu1 libdebconfclient0_0.250ubuntu1 libdebhelper-perl_12.7.1ubuntu1 libdevmapper1.02.1_2:1.02.155-2ubuntu7 libdpkg-perl_1.19.7ubuntu2 libedit2_3.1-20191025-1 libelf1_0.176-1.1 libexpat1_2.2.9-1 libexpat1-dev_2.2.9-1 libext2fs2_1.45.3-4ubuntu2 libfakeroot_1.24-1 libfdisk1_2.34-0.1ubuntu2 libffi-dev_3.2.1-9 libffi6_3.2.1-9 libfftw3-double3_3.3.8-2ubuntu1 libfile-stripnondeterminism-perl_1.6.3-1 libfontconfig1_2.13.1-2ubuntu2 libfreetype6_2.10.1-2 libfribidi0_1.0.7-1.1 libgc1c2_1:7.6.4-0.4 libgcc-9-dev_9.2.1-21ubuntu1 libgcc1_1:9.2.1-21ubuntu1 libgcrypt20_1.8.5-3ubuntu1 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgdk-pixbuf2.0-0_2.40.0+dfsg-1ubuntu1 libgdk-pixbuf2.0-common_2.40.0+dfsg-1ubuntu1 libgfortran5_9.2.1-21ubuntu1 libglib2.0-0_2.63.1-2 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.10-5 libgomp1_9.2.1-21ubuntu1 libgpg-error0_1.36-7 libgraphite2-3_1.3.13-11 libgssapi-krb5-2_1.17-6 libgssapi3-heimdal_7.5.0+dfsg-3build1 libharfbuzz-icu0_2.6.4-1 libharfbuzz0b_2.6.4-1 libhcrypto4-heimdal_7.5.0+dfsg-3build1 libheimbase1-heimdal_7.5.0+dfsg-3build1 libheimntlm0-heimdal_7.5.0+dfsg-3build1 libhogweed4_3.4.1-1 libhogweed5_3.5.1+really3.5.1-2 libhx509-5-heimdal_7.5.0+dfsg-3build1 libice6_2:1.0.10-0ubuntu1 libicu-dev_63.2-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libimagequant0_2.12.2-1.1 libip4tc2_1.8.3-2ubuntu5 libisl21_0.21-2 libisl22_0.22-2 libjbig0_2.1-3.1build1 libjpeg-turbo8_2.0.3-0ubuntu1 libjpeg8_8c-2ubuntu8 libjs-jquery_3.3.1~dfsg-3 libjs-sphinxdoc_1.8.5-3 libjs-underscore_1.9.1~dfsg-1 libjson-c4_0.13.1+dfsg-6 libjsoncpp1_1.7.4-3 libk5crypto3_1.17-6 libkeyutils1_1.6-6ubuntu1 libkmod2_26-3ubuntu1 libkpathsea6_2019.20190605.51237-3 libkrb5-26-heimdal_7.5.0+dfsg-3build1 libkrb5-3_1.17-6 libkrb5support0_1.17-6 liblapack3_3.9.0-1 liblcms2-2_2.9-4 libldap-2.4-2_2.4.48+dfsg-1ubuntu3 libldap-common_2.4.48+dfsg-1ubuntu3 libllvm7_1:7.0.1-9build1 libllvm9_1:9.0.0-4ubuntu4 liblockfile-bin_1.16-1.1 liblockfile1_1.16-1.1 liblqr-1-0_0.4.2-2.1 libltdl7_2.4.6-11 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.37-6 libmagic1_1:5.37-6 libmagickcore-6.q16-6_8:6.9.10.23+dfsg-2.1ubuntu10 libmagickwand-6.q16-6_8:6.9.10.23+dfsg-2.1ubuntu10 libmount1_2.34-0.1ubuntu2 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.2-1 libncurses-dev_6.1+20191019-1ubuntu1 libncurses6_6.1+20191019-1ubuntu1 libncursesw6_6.1+20191019-1ubuntu1 libnettle6_3.4.1-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libnpth0_1.6-1 libobjc-9-dev_9.2.1-21ubuntu1 libobjc4_9.2.1-21ubuntu1 libp11-kit0_0.23.18.1-2 libpam-modules_1.3.1-5ubuntu3 libpam-modules-bin_1.3.1-5ubuntu3 libpam-runtime_1.3.1-5ubuntu3 libpam0g_1.3.1-5ubuntu3 libpango-1.0-0_1.44.7-1 libpangocairo-1.0-0_1.44.7-1 libpangoft2-1.0-0_1.44.7-1 libpaper-utils_1.1.28 libpaper1_1.1.28 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.28_5.28.1-6build1 libperl5.30_5.30.0-9 libpipeline1_1.5.1-2 libpixman-1-0_0.38.4-0ubuntu1 libpng16-16_1.6.37-1 libpq-dev_12.1-1 libpq5_12.1-1 libprocps7_2:3.3.15-2ubuntu3 libpsl5_0.20.2-2 libptexenc1_2019.20190605.51237-3 libpython-dev_2.7.17-1 libpython-stdlib_2.7.17-1 libpython2-dev_2.7.17-1 libpython2-stdlib_2.7.17-1 libpython2.7_2.7.17-1 libpython2.7-dev_2.7.17-1 libpython2.7-minimal_2.7.17-1 libpython2.7-stdlib_2.7.17-1 libpython3-dev_3.7.5-1ubuntu1 libpython3-stdlib_3.7.5-1ubuntu1 libpython3.7_3.7.5-2 libpython3.7-dev_3.7.5-2 libpython3.7-minimal_3.7.5-2 libpython3.7-stdlib_3.7.5-2 libpython3.8-minimal_3.8.0-5 libpython3.8-stdlib_3.8.0-5 libreadline8_8.0-3 librhash0_1.3.8-1 libroken18-heimdal_7.5.0+dfsg-3build1 librsvg2-2_2.46.4-1ubuntu1 librsvg2-bin_2.46.4-1ubuntu1 librtmp1_2.4+20151223.gitfa8646d.1-2build1 libsasl2-2_2.1.27+dfsg-1build3 libsasl2-modules-db_2.1.27+dfsg-1build3 libschroedinger-coordgenlibs-dev_1.3-1 libschroedinger-coordgenlibs1_1.3-1 libschroedinger-maeparser-dev_1.2-1 libschroedinger-maeparser1_1.2-1 libseccomp2_2.4.1-0ubuntu0.19.10.3 libselinux1_2.9-3 libsemanage-common_2.9-3build1 libsemanage1_2.9-3build1 libsepol1_2.9-2 libsigsegv2_2.12-2 libsm6_2:1.2.3-1 libsmartcols1_2.34-0.1ubuntu2 libsqlite3-0_3.30.1-1ubuntu1 libsqlite3-dev_3.30.1-1ubuntu1 libss2_1.45.3-4ubuntu2 libssh-4_0.9.0-1ubuntu1 libssl1.1_1.1.1c-1ubuntu4 libstdc++-9-dev_9.2.1-21ubuntu1 libstdc++6_9.2.1-21ubuntu1 libsub-override-perl_0.09-2 libsynctex2_2019.20190605.51237-3 libsystemd0_243-3ubuntu1 libtasn1-6_4.15.0-2 libteckit0_2.5.8+ds2-5ubuntu1 libtexlua53_2019.20190605.51237-3 libtexluajit2_2019.20190605.51237-3 libthai-data_0.1.28-3 libthai0_0.1.28-3 libtiff5_4.1.0+git191117-1 libtinfo-dev_6.1+20191019-1ubuntu1 libtinfo6_6.1+20191019-1ubuntu1 libtool_2.4.6-11 libubsan1_9.2.1-21ubuntu1 libuchardet0_0.0.6-3 libudev1_243-3ubuntu1 libunistring2_0.9.10-2 libuuid1_2.34-0.1ubuntu2 libuv1_1.33.1-2 libwebp6_0.6.1-2 libwebpdemux2_0.6.1-2 libwebpmux3_0.6.1-2 libwind0-heimdal_7.5.0+dfsg-3build1 libx11-6_2:1.6.8-1 libx11-data_2:1.6.8-1 libxapian30_1.4.12-1 libxau6_1:1.0.9-0ubuntu1 libxaw7_2:1.0.13-1 libxcb-render0_1.13.1-2 libxcb-shm0_1.13.1-2 libxcb1_1.13.1-2 libxdmcp6_1:1.1.3-0ubuntu1 libxext6_2:1.3.4-0ubuntu1 libxi6_2:1.7.10-0ubuntu1 libxml2_2.9.4+dfsg1-7ubuntu5 libxmu6_2:1.1.3-0ubuntu1 libxpm4_1:3.5.12-1 libxrender1_1:0.9.10-1 libxt6_1:1.1.5-1 libzstd1_1.4.4+dfsg-1 libzzip-0-13_0.13.62-3.2 linux-libc-dev_5.3.0-24.26 llvm-7_1:7.0.1-9build1 llvm-7-dev_1:7.0.1-9build1 llvm-7-runtime_1:7.0.1-9build1 lockfile-progs_0.1.18 login_1:4.5-1.1ubuntu4 logsave_1.45.3-4ubuntu2 lsb-base_11.1.0ubuntu1 lsb-release_11.1.0ubuntu1 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-1 mawk_1.3.3-17ubuntu3 mime-support_3.64ubuntu1 mount_2.34-0.1ubuntu2 ncurses-base_6.1+20191019-1ubuntu1 ncurses-bin_6.1+20191019-1ubuntu1 netbase_5.6 openssl_1.1.1c-1ubuntu4 optipng_0.7.7-1 pandoc_2.5-3 pandoc-data_2.5-3 passwd_1:4.5-1.1ubuntu4 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.28_5.28.1-6build1 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 pkgbinarymangler_144 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 postgresql-client-common_204ubuntu1 postgresql-common_204ubuntu1 postgresql-server-dev-11_11.5-1build1 postgresql-server-dev-all_204ubuntu1 preview-latex-style_11.91-2ubuntu1 procps_2:3.3.15-2ubuntu3 python_2.7.17-1 python-babel-localedata_2.6.0+dfsg.1-1 python-dev_2.7.17-1 python-minimal_2.7.17-1 python2_2.7.17-1 python2-dev_2.7.17-1 python2-minimal_2.7.17-1 python2.7_2.7.17-1 python2.7-dev_2.7.17-1 python2.7-minimal_2.7.17-1 python3_3.7.5-1ubuntu1 python3-alabaster_0.7.8-1 python3-attr_18.2.0-1 python3-babel_2.6.0+dfsg.1-1 python3-certifi_2018.8.24-1 python3-chardet_3.0.4-4 python3-commonmark-bkrs_0.5.4+ds-4 python3-dateutil_2.7.3-3 python3-dev_3.7.5-1ubuntu1 python3-distutils_3.8.0-1 python3-docutils_0.15.2+dfsg-1 python3-idna_2.6-2 python3-imagesize_1.0.0-1 python3-jinja2_2.10-2ubuntu1 python3-lib2to3_3.8.0-1 python3-markupsafe_1.1.0-1build1 python3-minimal_3.7.5-1ubuntu1 python3-numpy_1:1.17.4-3ubuntu2 python3-packaging_19.1-2 python3-pandas_0.25.3+dfsg-4 python3-pandas-lib_0.25.3+dfsg-4 python3-pil_6.2.1-2 python3-pkg-resources_41.4.0-1 python3-pygments_2.3.1+dfsg-1ubuntu1 python3-pyparsing_2.4.2-1 python3-recommonmark_0.4.0+ds-6 python3-requests_2.21.0-1 python3-roman_2.0.0-3 python3-six_1.12.0-2build1 python3-sphinx_1.8.5-3 python3-tz_2019.3-1 python3-urllib3_1.24.1-1ubuntu1 python3.7_3.7.5-2 python3.7-dev_3.7.5-2 python3.7-minimal_3.7.5-2 python3.8_3.8.0-5 python3.8-minimal_3.8.0-5 rapidjson-dev_1.1.0+dfsg2-5 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-rdkit-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sgml-base_1.29.1 shared-mime-info_1.10-1 sphinx-common_1.8.5-3 ssl-cert_1.0.39 systemd_243-3ubuntu1 systemd-sysv_243-3ubuntu1 sysvinit-utils_2.96-1ubuntu1 t1utils_1.41-3 tar_1.30+dfsg-6 tex-common_6.13 texlive-base_2019.20191112-1 texlive-binaries_2019.20190605.51237-3 texlive-fonts-recommended_2019.20191112-1 texlive-latex-base_2019.20191112-1 texlive-latex-extra_2019.20191112-1 texlive-latex-recommended_2019.20191112-1 texlive-pictures_2019.20191112-1 tzdata_2019c-3 ubuntu-keyring_2018.09.18.1 ucf_3.0038+nmu1 util-linux_2.34-0.1ubuntu2 x11-common_1:7.7+19ubuntu12 xdg-utils_1.1.3-1ubuntu2 xml-core_0.18+nmu1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1ubuntu3 zlib1g-dev_1:1.2.11.dfsg-1ubuntu3 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Mon Dec 9 19:59:30 2019 UTC gpgv: using RSA key EE240A052A231AD8925841D79B8EC849D5EF70ED gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./rdkit_201903.1-2ubuntu1.dsc dpkg-source: info: extracting rdkit in rdkit-201903.1 dpkg-source: info: unpacking rdkit_201903.1.orig.tar.xz dpkg-source: info: unpacking rdkit_201903.1-2ubuntu1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying NoDownloads.patch dpkg-source: info: applying postgres_Makefile_fixes.patch dpkg-source: info: applying postgres_disable_failing_tests.patch dpkg-source: info: applying sphinx_imgconverter.patch dpkg-source: info: applying catch2_header.patch Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-18226031 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-18226031 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-18226031 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package rdkit dpkg-buildpackage: info: source version 201903.1-2ubuntu1 dpkg-buildpackage: info: source distribution focal dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf fakeroot debian/rules clean pg_buildext checkcontrol dh clean --with python3 --buildsystem=cmake --parallel debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' find /<> -name "*.pyc" | xargs rm -f rm -f -r Projects/DbCLI/testData/bzr/ rdkit/Chem/inchi.py rm -f -r Docs/Book/_build Code/docs rdkit/docs Code/doxygen_sqlite3.db rm -f \ Code/ForceField/MMFF/test_data/MMFF94_dative_min.sdf \ Code/ForceField/MMFF/test_data/MMFF94_dative_min_from_SMILES.sdf \ Code/ForceField/MMFF/test_data/MMFF94_hypervalent_min.sdf \ Code/ForceField/MMFF/test_data/MMFF94_hypervalent_min_from_SMILES.sdf \ Code/ForceField/MMFF/test_data/MMFF94_reference.log \ Code/ForceField/MMFF/test_data/MMFF94s_reference.log \ Code/ForceField/MMFF/test_data/testMMFFForceField.log \ Code/GraphMol/Depictor/test_data/cis_trans_cpp.out.sdf \ Code/GraphMol/Depictor/test_data/collisions.out.sdf \ Code/GraphMol/Depictor/test_data/first_200.out.sdf \ Code/GraphMol/Depictor/test_data/test1.out.sdf \ Code/GraphMol/FileParsers/test_data/blah.sdf \ Code/GraphMol/FileParsers/test_data/cdk2_stereo.sdf \ Code/GraphMol/FileParsers/test_data/outNCI_few.sdf \ Code/GraphMol/FileParsers/test_data/outNCI_few.tdt \ Code/GraphMol/FileParsers/test_data/outNCI_first_200.props.sdf \ Code/GraphMol/FileParsers/test_data/outSmiles.csv \ Code/GraphMol/ForceFieldHelpers/UFF/test_data/Issue62.sdf \ Code/GraphMol/MolAlign/test_data/ref_e2_pyCrippenO3A.sdf \ Code/GraphMol/SLNParse/lex.yysln.cpp \ Code/GraphMol/SLNParse/sln.tab.cpp \ Code/GraphMol/SLNParse/sln.tab.hpp \ Code/GraphMol/SmilesParse/lex.yysmarts.cpp \ Code/GraphMol/SmilesParse/lex.yysmiles.cpp \ Code/GraphMol/SmilesParse/smarts.tab.cpp \ Code/GraphMol/SmilesParse/smarts.tab.hpp \ Code/GraphMol/SmilesParse/smiles.tab.cpp \ Code/GraphMol/SmilesParse/smiles.tab.hpp \ Code/GraphMol/Wrap/test_data/outNCI_few.sdf \ Code/GraphMol/Wrap/test_data/outSmiles.txt \ Code/RDGeneral/versions.cpp \ Docs/Book/Cartridge.rst \ Docs/Book/Cookbook.rst \ Docs/Book/Install.rst \ Docs/Book/Overview.rst \ rdkit/ML/Data/test_data/testgeneral.dat.pkl \ rdkit/ML/Data/test_data/testquant.qdat.pkl rm -f Code/RDGeneral/versions.h rdkit/sping/tests/testallps.ps dh_auto_clean pg_buildext clean /<>/Code/PgSQL/rdkit build-%v ### clean 11 ### make[1]: Leaving directory '/<>' dh_clean -O--buildsystem=cmake -O--parallel debian/rules build-arch dh build-arch --with python3 --buildsystem=cmake --parallel dh_update_autotools_config -a -O--buildsystem=cmake -O--parallel debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=ON -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF -DRDK_BUILD_THREADSAFE_SSS=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_OPTIMIZE_NATIVE=OFF -DCMAKE_INSTALL_PREFIX=/usr -DPYTHON_EXECUTABLE=/usr/bin/python3.7 ../ cd obj-arm-linux-gnueabihf && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=ON -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF -DRDK_BUILD_THREADSAFE_SSS=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_OPTIMIZE_NATIVE=OFF -DCMAKE_INSTALL_PREFIX=/usr -DPYTHON_EXECUTABLE=/usr/bin/python3.7 ../ .. -- The C compiler identification is GNU 9.2.1 -- The CXX compiler identification is GNU 9.2.1 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- Using unsigned short -- Check if the system is big endian - little endian -- Found Catch2 source in /<>/External/catch/catch CATCH: /<>/External/catch/catch/single_include -- Found PythonInterp: /usr/bin/python3.7 (found version "3.7.5") -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.7m.so (found version "3.7.5") Python Install directory /usr/lib/python3/dist-packages PYTHON Py_ENABLE_SHARED: 1 PYTHON USING LINK LINE: -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -- Could NOT find Eigen3 (missing: EIGEN3_INCLUDE_DIR EIGEN3_VERSION_OK) (Required is at least version "2.91.0") Eigen3 not found, disabling the Descriptors3D build. -- Looking for pthread.h -- Looking for pthread.h - found -- Looking for pthread_create -- Looking for pthread_create - not found -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- Boost version: 1.67.0 -- Found the following Boost libraries: -- serialization == Using strict rotor definition -- maeparser include dir set as '/usr/include' -- maeparser libraries set as '/usr/lib/arm-linux-gnueabihf/libmaeparser.so' -- Found maeparser: /usr/include -- coordgen include dir set as /usr/include -- coordgen libraries set as '/usr/lib/arm-linux-gnueabihf/libcoordgen.so' -- Found coordgen: /usr/include -- Boost version: 1.67.0 -- Found the following Boost libraries: -- system -- iostreams -- regex -- Boost version: 1.67.0 -- Found the following Boost libraries: -- system -- iostreams -- regex == Updating Filters.cpp from pains file == Done updating pains files -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /<>/obj-arm-linux-gnueabihf make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build cd obj-arm-linux-gnueabihf && make -j4 make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles /<>/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f External/catch/CMakeFiles/catch.dir/build.make External/catch/CMakeFiles/catch.dir/depend make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/catch /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/catch /<>/obj-arm-linux-gnueabihf/External/catch/CMakeFiles/catch.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/INCHI-API /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/INCHI-API /<>/obj-arm-linux-gnueabihf/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[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/CoordGen /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/CoordGen /<>/obj-arm-linux-gnueabihf/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake --color= Scanning dependencies of target coordgen_support make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'External/CoordGen/CMakeFiles/coordgen_support.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' Scanning dependencies of target catch Scanning dependencies of target inchi_support make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/catch/CMakeFiles/catch.dir/build.make External/catch/CMakeFiles/catch.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'External/catch/CMakeFiles/catch.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/External/INCHI-API && /usr/bin/cmake -E copy /<>/External/INCHI-API/python/noinchi.py /<>/rdkit/Chem/inchi.py [ 0%] Built target coordgen_support [ 0%] Built target catch make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/RDGeneral.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]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDStreams /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDStreams /<>/obj-arm-linux-gnueabihf/Code/RDStreams/CMakeFiles/RDStreams.dir/DependInfo.cmake --color= cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/DependInfo.cmake --color= [ 0%] Built target inchi_support Scanning dependencies of target RDStreams Scanning dependencies of target hc make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Building CXX object Code/RDStreams/CMakeFiles/RDStreams.dir/streams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDStreams && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RDSTREAMS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDStreams_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/RDStreams/streams.cpp [ 1%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hc.c.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/cc -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -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 /<>/Code/ML/Cluster/Murtagh/hc.c [ 1%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/cc -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -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 /<>/Code/ML/Cluster/Murtagh/hcdriver.c Scanning dependencies of target RDGeneral make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Invariant.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/RDGeneral/Invariant.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/types.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/RDGeneral/types.cpp [ 2%] Linking C shared library ../../../../lib/libRDKithc.so cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/hc.dir/link.txt --verbose=1 /usr/bin/cc -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKithc.so.1 -o ../../../../lib/libRDKithc.so.1.2019.03.1 CMakeFiles/hc.dir/hc.c.o CMakeFiles/hc.dir/hcdriver.c.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_symlink_library ../../../../lib/libRDKithc.so.1.2019.03.1 ../../../../lib/libRDKithc.so.1 ../../../../lib/libRDKithc.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Built target hc [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/utils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/RDGeneral/utils.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/RDGeneral/RDLog.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Dict.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Dict.cpp.o -c /<>/Code/RDGeneral/Dict.cpp [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/RDGeneral/LocaleSwitcher.cpp [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/versions.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/RDGeneral/versions.cpp [ 3%] Linking CXX shared library ../../lib/libRDKitRDStreams.so cd /<>/obj-arm-linux-gnueabihf/Code/RDStreams && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDStreams.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDStreams.so.1 -o ../../lib/libRDKitRDStreams.so.1.2019.03.1 CMakeFiles/RDStreams.dir/streams.cpp.o -lboost_system -lboost_iostreams -lboost_regex -lboost_system -lboost_iostreams -lboost_regex cd /<>/obj-arm-linux-gnueabihf/Code/RDStreams && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDStreams.so.1.2019.03.1 ../../lib/libRDKitRDStreams.so.1 ../../lib/libRDKitRDStreams.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Built target RDStreams [ 3%] Linking CXX shared library ../../lib/libRDKitRDGeneral.so cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeneral.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDGeneral.so.1 -o ../../lib/libRDKitRDGeneral.so.1.2019.03.1 CMakeFiles/RDGeneral.dir/Invariant.cpp.o CMakeFiles/RDGeneral.dir/types.cpp.o CMakeFiles/RDGeneral.dir/utils.cpp.o CMakeFiles/RDGeneral.dir/RDLog.cpp.o CMakeFiles/RDGeneral.dir/Dict.cpp.o CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o CMakeFiles/RDGeneral.dir/versions.cpp.o -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeneral.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1 ../../lib/libRDKitRDGeneral.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Built target RDGeneral make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/depend make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake --color= make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/EigenSolvers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake --color= make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDBoost /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDBoost /<>/obj-arm-linux-gnueabihf/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake --color= Scanning dependencies of target EigenSolvers Scanning dependencies of target RDBoost make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' Scanning dependencies of target testDict make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' Scanning dependencies of target DataStructs make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build [ 3%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o [ 3%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDBoost && /usr/bin/c++ -DRDBoost_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDBOOST_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/RDBoost/Wrap.cpp cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers && /usr/bin/c++ -DEigenSolvers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_EIGENSOLVERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/RDGeneral/testDict.cpp [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/BitVect.cpp [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/SparseBitVect.cpp [ 3%] Linking CXX shared library ../../../lib/libRDKitEigenSolvers.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitEigenSolvers.so.1 -o ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1 ../../../lib/libRDKitEigenSolvers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Built target EigenSolvers make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake --color= Scanning dependencies of target testRDValue make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Building CXX object Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/RDGeneral/testRDValue.cpp [ 4%] Linking CXX shared library ../../lib/libRDKitRDBoost.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDBoost.so.1 -o ../../lib/libRDKitRDBoost.so.1.2019.03.1 CMakeFiles/RDBoost.dir/Wrap.cpp.o ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/RDBoost && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDBoost.so.1.2019.03.1 ../../lib/libRDKitRDBoost.so.1 ../../lib/libRDKitRDBoost.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 4%] Built target RDBoost make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics /<>/obj-arm-linux-gnueabihf/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake --color= Scanning dependencies of target testMatrices make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Building CXX object Code/Numerics/CMakeFiles/testMatrices.dir/testMatrices.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/Numerics/testMatrices.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/testDict.cpp:14: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 6%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/ExplicitBitVect.cpp In file included from /<>/Code/RDGeneral/testRDValue.cpp:5: /<>/Code/RDGeneral/StreamOps.h: In function ‘bool RDKit::isSerializable(const RDKit::Dict::Pair&, const CustomPropHandlerVec&)’: /<>/Code/RDGeneral/StreamOps.h:353:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 353 | } | ^ /<>/Code/RDGeneral/StreamOps.h:354:5: note: here 354 | default: | ^~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void testVectToString()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/RDValue-taggedunion.h:40, from /<>/Code/RDGeneral/RDValue.h:39, from /<>/Code/RDGeneral/testRDValue.cpp:2: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long double&}; _Tp = long double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator > >’} changed in GCC 7.1 In file included from /usr/include/c++/9/map:60, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/testDict.cpp:14: /usr/include/c++/9/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::allocator >&&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, RDKit::RDAny>; _KeyOfValue = std::_Select1st, RDKit::RDAny> >; _Compare = std::less >; _Alloc = std::allocator, RDKit::RDAny> >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, RDKit::RDAny>, std::_Select1st, RDKit::RDAny> >, std::less >, std::allocator, RDKit::RDAny> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, RDKit::RDAny> >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/testDict.cpp:14: /usr/include/c++/9/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](std::map<_Key, _Tp, _Compare, _Alloc>::key_type&&) [with _Key = std::__cxx11::basic_string; _Tp = RDKit::RDAny; _Compare = std::less >; _Alloc = std::allocator, RDKit::RDAny> >]’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::pair, RDKit::RDAny>, std::_Select1st, RDKit::RDAny> >, std::less >, std::allocator, RDKit::RDAny> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator, RDKit::RDAny> >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/testDict.cpp:14: /usr/include/c++/9/bits/stl_vector.h: In function ‘void testRDAny()’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/RDValue-taggedunion.h:40, from /<>/Code/RDGeneral/RDValue.h:39, from /<>/Code/RDGeneral/testRDValue.cpp:2: /usr/include/c++/9/bits/stl_vector.h: In function ‘void testVector() [with T = double]’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/RDValue-taggedunion.h:40, from /<>/Code/RDGeneral/RDValue.h:39, from /<>/Code/RDGeneral/testRDValue.cpp:2: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long double}; _Tp = long double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/RDValue-taggedunion.h:40, from /<>/Code/RDGeneral/RDValue.h:39, from /<>/Code/RDGeneral/testRDValue.cpp:2: /usr/include/c++/9/bits/stl_vector.h: In function ‘void testVector() [with T = long double]’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/RDValue-taggedunion.h:40, from /<>/Code/RDGeneral/RDValue.h:39, from /<>/Code/RDGeneral/testRDValue.cpp:2: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 6%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/Utils.cpp [ 6%] Linking CXX executable testMatrices cd /<>/obj-arm-linux-gnueabihf/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatrices.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMatrices.dir/testMatrices.cpp.o -o testMatrices ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Built target testMatrices make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Catalogs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Catalogs /<>/obj-arm-linux-gnueabihf/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake --color= Scanning dependencies of target Catalogs make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/Catalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Catalogs && /usr/bin/c++ -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Catalogs/Catalog.cpp [ 6%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/base64.cpp [ 6%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/BitOps.cpp.o -c /<>/Code/DataStructs/BitOps.cpp [ 6%] Linking CXX executable testRDValue cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDValue.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testRDValue.dir/testRDValue.cpp.o -o testRDValue ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Built target testRDValue make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Query /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Query /<>/obj-arm-linux-gnueabihf/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake --color= Scanning dependencies of target testQuery make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Building CXX object Code/Query/CMakeFiles/testQuery.dir/test.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Query && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testQuery.dir/test.cpp.o -c /<>/Code/Query/test.cpp [ 7%] Linking CXX executable testDict cd /<>/obj-arm-linux-gnueabihf/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testDict.dir/testDict.cpp.o -o testDict ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Built target testDict make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataManip/MetricMatrixCalc /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= Scanning dependencies of target testMatCalc make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Building CXX object Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -c /<>/Code/DataManip/MetricMatrixCalc/testMatCalc.cpp [ 7%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Catalogs && /usr/bin/c++ -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Catalogs/CatalogParams.cpp [ 7%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Catalogs && /usr/bin/c++ -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Catalogs/CatalogEntry.cpp [ 7%] Linking CXX shared library ../../lib/libRDKitCatalogs.so cd /<>/obj-arm-linux-gnueabihf/Code/Catalogs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Catalogs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitCatalogs.so.1 -o ../../lib/libRDKitCatalogs.so.1.2019.03.1 CMakeFiles/Catalogs.dir/Catalog.cpp.o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/Catalogs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../lib/libRDKitCatalogs.so.1 ../../lib/libRDKitCatalogs.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Built target Catalogs make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake --color= Scanning dependencies of target SimDivPickers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/SimDivPickers/DistPicker.cpp [ 7%] Linking CXX executable testMatCalc cd /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatCalc.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -o testMatCalc ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Built target testMatCalc make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake --color= Scanning dependencies of target Clustering make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 7%] Building CXX object Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/c++ -DClustering_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ML/Cluster/Murtagh/Clustering.cpp [ 7%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/SimDivPickers/MaxMinPicker.cpp [ 7%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/DiscreteDistMat.cpp [ 7%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/DiscreteValueVect.cpp [ 7%] Linking CXX executable testQuery cd /<>/obj-arm-linux-gnueabihf/Code/Query && /usr/bin/cmake -E cmake_link_script CMakeFiles/testQuery.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testQuery.dir/test.cpp.o -o testQuery ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 7%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/SimDivPickers/HierarchicalClusterPicker.cpp [ 7%] Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so cd /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/Clustering.dir/link.txt --verbose=1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/ML/Cluster/Clustering.so CMakeFiles/Clustering.dir/Clustering.cpp.o ../../../../lib/libRDKithc.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 7%] Built target testQuery make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDBoost/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDBoost/Wrap /<>/obj-arm-linux-gnueabihf/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= Scanning dependencies of target rdBase make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 8%] Building CXX object Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/RDBase.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/RDBoost/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdBase_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdBase.dir/RDBase.cpp.o -c /<>/Code/RDBoost/Wrap/RDBase.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 8%] Built target Clustering [ 9%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/FPBReader.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/FPBReader.cpp [ 9%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/MultiFPBReader.cpp [ 9%] Linking CXX shared library ../../lib/libRDKitSimDivPickers.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSimDivPickers.so.1 -o ../../lib/libRDKitSimDivPickers.so.1.2019.03.1 CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o ../../lib/libRDKithc.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitSimDivPickers.so.1.2019.03.1 ../../lib/libRDKitSimDivPickers.so.1 ../../lib/libRDKitSimDivPickers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Built target SimDivPickers make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake --color= Scanning dependencies of target testSimDivPickers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Building CXX object Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/SimDivPickers/testPickers.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/dynamic_bitset/dynamic_bitset.hpp:24, from /usr/include/boost/dynamic_bitset.hpp:15, from /<>/Code/DataStructs/ExplicitBitVect.h:16, from /<>/Code/DataStructs/FPBReader.cpp:15: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/dynamic_bitset/dynamic_bitset.hpp:23, from /usr/include/boost/dynamic_bitset.hpp:15, from /<>/Code/DataStructs/ExplicitBitVect.h:16, from /<>/Code/DataStructs/FPBReader.cpp:15: /usr/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h: In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1879 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:1879:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/bits/stl_algo.h:61, from /usr/include/c++/9/algorithm:62, from /usr/include/boost/dynamic_bitset/dynamic_bitset.hpp:23, from /usr/include/boost/dynamic_bitset.hpp:15, from /<>/Code/DataStructs/ExplicitBitVect.h:16, from /<>/Code/DataStructs/FPBReader.cpp:15: /usr/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Distance = int; _Tp = std::pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/dynamic_bitset/dynamic_bitset.hpp:23, from /usr/include/boost/dynamic_bitset.hpp:15, from /<>/Code/DataStructs/ExplicitBitVect.h:16, from /<>/Code/DataStructs/FPBReader.cpp:15: /usr/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h: In member function ‘std::vector > RDKit::FPBReader::getTverskyNeighbors(const uint8_t*, double, double, double, bool) const’: /usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h: In member function ‘std::vector > RDKit::FPBReader::getTanimotoNeighbors(const uint8_t*, double, bool) const’: /usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1970:31: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1970 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/core/swap.hpp:25, from /usr/include/boost/utility/swap.hpp:15, from /usr/include/boost/tuple/detail/tuple_basic.hpp:40, from /usr/include/boost/tuple/tuple.hpp:28, from /usr/include/boost/tuple/tuple_comparison.hpp:19, from /<>/Code/DataStructs/MultiFPBReader.cpp:11: /usr/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]’: /usr/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1820 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 In file included from /usr/include/c++/9/bits/stl_algo.h:61, from /usr/include/c++/9/algorithm:62, from /usr/include/boost/core/swap.hpp:25, from /usr/include/boost/utility/swap.hpp:15, from /usr/include/boost/tuple/detail/tuple_basic.hpp:40, from /usr/include/boost/tuple/tuple.hpp:28, from /usr/include/boost/tuple/tuple_comparison.hpp:19, from /<>/Code/DataStructs/MultiFPBReader.cpp:11: /usr/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Distance = int; _Tp = boost::tuples::tuple; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/core/swap.hpp:25, from /usr/include/boost/utility/swap.hpp:15, from /usr/include/boost/tuple/detail/tuple_basic.hpp:40, from /usr/include/boost/tuple/tuple.hpp:28, from /usr/include/boost/tuple/tuple_comparison.hpp:19, from /<>/Code/DataStructs/MultiFPBReader.cpp:11: /usr/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]’: /usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Ranking.h:21, from /<>/Code/DataStructs/MultiFPBReader.cpp:14: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {boost::tuples::tuple}; _Tp = boost::tuples::tuple; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {boost::tuples::tuple}; _Tp = boost::tuples::tuple; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_range_insert(std::vector<_Tp, _Alloc>::iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Tp = boost::tuples::tuple; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 721 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Ranking.h:21, from /<>/Code/DataStructs/MultiFPBReader.cpp:14: /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::{anonymous}::generic_nbr_helper(std::vector >&, T, const RDKit::{anonymous}::sim_args&, unsigned int) [with T = void (*)(unsigned int, unsigned int, const RDKit::{anonymous}::sim_args*)]’: /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 1662 | _M_range_insert(__pos, __first, __last, | ^~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/core/swap.hpp:25, from /usr/include/boost/utility/swap.hpp:15, from /usr/include/boost/tuple/detail/tuple_basic.hpp:40, from /usr/include/boost/tuple/tuple.hpp:28, from /usr/include/boost/tuple/tuple_comparison.hpp:19, from /<>/Code/DataStructs/MultiFPBReader.cpp:11: /usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ [ 10%] Linking CXX executable testSimDivPickers cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -o testSimDivPickers ../../lib/libRDKitSimDivPickers.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread ../../lib/libRDKithc.so.1.2019.03.1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Built target testSimDivPickers [ 10%] Linking CXX shared library ../../lib/libRDKitDataStructs.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDataStructs.so.1 -o ../../lib/libRDKitDataStructs.so.1.2019.03.1 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.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1 ../../lib/libRDKitDataStructs.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Built target DataStructs make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake --color= cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake --color= Scanning dependencies of target testMultiFPB make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build Scanning dependencies of target testDataStructs make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Building CXX object Code/DataStructs/CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o Scanning dependencies of target RDGeometryLib make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -c /<>/Code/DataStructs/testMultiFPB.cpp make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/point.cpp.o [ 11%] Building CXX object Code/DataStructs/CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -c /<>/Code/DataStructs/testDatastructs.cpp cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Geometry/point.cpp /<>/Code/DataStructs/testDatastructs.cpp: In function ‘void test5DiscreteVectOps2()’: /<>/Code/DataStructs/testDatastructs.cpp:477:19: warning: implicitly-declared ‘RDKit::DiscreteValueVect& RDKit::DiscreteValueVect::operator=(const RDKit::DiscreteValueVect&)’ is deprecated [-Wdeprecated-copy] 477 | vect5 = vect1 - vect2; | ^~~~~ In file included from /<>/Code/DataStructs/testDatastructs.cpp:22: /<>/Code/DataStructs/DiscreteValueVect.h:50:3: note: because ‘RDKit::DiscreteValueVect’ has user-provided ‘RDKit::DiscreteValueVect::DiscreteValueVect(const RDKit::DiscreteValueVect&)’ 50 | DiscreteValueVect(const DiscreteValueVect &other); | ^~~~~~~~~~~~~~~~~ /<>/Code/DataStructs/testDatastructs.cpp:479:19: warning: implicitly-declared ‘RDKit::DiscreteValueVect& RDKit::DiscreteValueVect::operator=(const RDKit::DiscreteValueVect&)’ is deprecated [-Wdeprecated-copy] 479 | vect5 = vect2 - vect1; | ^~~~~ In file included from /<>/Code/DataStructs/testDatastructs.cpp:22: /<>/Code/DataStructs/DiscreteValueVect.h:50:3: note: because ‘RDKit::DiscreteValueVect’ has user-provided ‘RDKit::DiscreteValueVect::DiscreteValueVect(const RDKit::DiscreteValueVect&)’ 50 | DiscreteValueVect(const DiscreteValueVect &other); | ^~~~~~~~~~~~~~~~~ /<>/Code/DataStructs/testDatastructs.cpp: In function ‘void test6SparseIntVect()’: /<>/Code/DataStructs/testDatastructs.cpp:627:17: warning: implicitly-declared ‘RDKit::SparseIntVect& RDKit::SparseIntVect::operator=(const RDKit::SparseIntVect&)’ is deprecated [-Wdeprecated-copy] 627 | iV3 = iV1 & iV2; | ^~~ In file included from /<>/Code/DataStructs/testDatastructs.cpp:26: /<>/Code/DataStructs/SparseIntVect.h:38:3: note: because ‘RDKit::SparseIntVect’ has user-provided ‘RDKit::SparseIntVect::SparseIntVect(const RDKit::SparseIntVect&) [with IndexType = int]’ 38 | SparseIntVect(const SparseIntVect &other) { | ^~~~~~~~~~~~~ /<>/Code/DataStructs/testDatastructs.cpp:725:17: warning: implicitly-declared ‘RDKit::SparseIntVect& RDKit::SparseIntVect::operator=(const RDKit::SparseIntVect&)’ is deprecated [-Wdeprecated-copy] 725 | iV3 = iV1 | iV2; | ^~~ In file included from /<>/Code/DataStructs/testDatastructs.cpp:26: /<>/Code/DataStructs/SparseIntVect.h:38:3: note: because ‘RDKit::SparseIntVect’ has user-provided ‘RDKit::SparseIntVect::SparseIntVect(const RDKit::SparseIntVect&) [with IndexType = int]’ 38 | SparseIntVect(const SparseIntVect &other) { | ^~~~~~~~~~~~~ /<>/Code/DataStructs/testDatastructs.cpp:808:17: warning: implicitly-declared ‘RDKit::SparseIntVect& RDKit::SparseIntVect::operator=(const RDKit::SparseIntVect&)’ is deprecated [-Wdeprecated-copy] 808 | iV3 = iV1 + iV2; | ^~~ In file included from /<>/Code/DataStructs/testDatastructs.cpp:26: /<>/Code/DataStructs/SparseIntVect.h:38:3: note: because ‘RDKit::SparseIntVect’ has user-provided ‘RDKit::SparseIntVect::SparseIntVect(const RDKit::SparseIntVect&) [with IndexType = int]’ 38 | SparseIntVect(const SparseIntVect &other) { | ^~~~~~~~~~~~~ /<>/Code/DataStructs/testDatastructs.cpp:864:17: warning: implicitly-declared ‘RDKit::SparseIntVect& RDKit::SparseIntVect::operator=(const RDKit::SparseIntVect&)’ is deprecated [-Wdeprecated-copy] 864 | iV3 = iV1 - iV2; | ^~~ In file included from /<>/Code/DataStructs/testDatastructs.cpp:26: /<>/Code/DataStructs/SparseIntVect.h:38:3: note: because ‘RDKit::SparseIntVect’ has user-provided ‘RDKit::SparseIntVect::SparseIntVect(const RDKit::SparseIntVect&) [with IndexType = int]’ 38 | SparseIntVect(const SparseIntVect &other) { | ^~~~~~~~~~~~~ [ 11%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o -c /<>/Code/Geometry/Transform2D.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/DataStructs/BitVect.h:14, from /<>/Code/DataStructs/BitVects.h:19, from /<>/Code/DataStructs/testDatastructs.cpp:17: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 11%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Geometry/Transform3D.cpp [ 11%] Linking CXX executable testMultiFPB cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultiFPB.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -o testMultiFPB ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 11%] Built target testMultiFPB make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake --color= Scanning dependencies of target testFPB make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 11%] Building CXX object Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/c++ -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/DataStructs/testFPB.cpp In file included from /<>/Code/RDBoost/Wrap/RDBase.cpp:14: /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:336:16: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 336 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /usr/include/c++/9/bits/vector.tcc: In function ‘void test16BitVectProps()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 11%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Geometry/UniformGrid3D.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In function ‘void boost::python::container_utils::extend_container(Container&, boost::python::api::object) [with Container = std::vector]’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In static member function ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::iterator) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:184:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 184 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:184:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc:184:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In static member function ‘static void boost::python::indexing_suite::base_delete_item(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = double; Index = unsigned int; Key = double]’: /usr/include/c++/9/bits/stl_vector.h:1458:71: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1458 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ^ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/function/detail/prologue.hpp:13, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/stl_algo.h: In function ‘_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’: /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 112 | __find_if(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h: In static member function ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = double; Index = unsigned int; Key = double]’: /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_range_insert(std::vector<_Tp, _Alloc>::iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 721 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In static member function ‘static void boost::python::vector_indexing_suite::base_extend(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’: /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 1662 | _M_range_insert(__pos, __first, __last, | ^~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_vector.h: In static member function ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = double; Index = unsigned int]’: /usr/include/c++/9/bits/stl_vector.h:1458:71: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1458 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ^ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/vector.tcc:161:2: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/stl_vector.h:1458:71: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1458 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ^ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/vector.tcc:161:2: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 1662 | _M_range_insert(__pos, __first, __last, | ^~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_vector.h:1458:71: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1458 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ^ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 1662 | _M_range_insert(__pos, __first, __last, | ^~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 [ 11%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Geometry/GridUtils.cpp [ 12%] Linking CXX executable testFPB cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFPB.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testFPB.dir/testFPB.cpp.o -o testFPB ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 12%] Built target testFPB make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake --color= Scanning dependencies of target cDataStructs make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 13%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/Wrap/DataStructs.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Geometry/GridUtils.h:14, from /<>/Code/Geometry/GridUtils.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Geometry/GridUtils.h:14, from /<>/Code/Geometry/GridUtils.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘std::vector RDGeom::findGridTerminalPoints(const RDGeom::UniformGrid3D&, double, double)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 14%] Linking CXX shared library ../../lib/libRDKitRDGeometryLib.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDGeometryLib.so.1 -o ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 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.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 14%] Linking CXX executable testDataStructs cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -o testDataStructs ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1 ../../lib/libRDKitRDGeometryLib.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 14%] Built target RDGeometryLib make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataManip/MetricMatrixCalc/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake --color= Scanning dependencies of target rdMetricMatrixCalc make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Building CXX object Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMetricMatrixCalc_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -c /<>/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Built target testDataStructs make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= Scanning dependencies of target rdSimDivPickers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/SimDivPickers/Wrap/MaxMinPicker.cpp [ 16%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/Wrap/DiscreteValueVect.cpp In file included from /<>/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp:15: /<>/Code/RDBoost/PySequenceHolder.h: In function ‘double RDDataManip::EuclideanDistanceMetric(const T1&, const T2&, unsigned int) [with T1 = PySequenceHolder; T2 = PySequenceHolder]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ [ 16%] Linking CXX shared module ../../../rdkit/rdBase.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/rdBase.so CMakeFiles/rdBase.dir/RDBase.cpp.o ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Built target rdBase make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/InfoTheory /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= Scanning dependencies of target InfoTheory make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Building CXX object Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory && /usr/bin/c++ -DInfoTheory_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_INFOTHEORY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ML/InfoTheory/InfoBitRanker.cpp [ 16%] Linking CXX shared module ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Built target rdMetricMatrixCalc make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target ChemicalFeatures make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures && /usr/bin/c++ -DChemicalFeatures_EXPORTS -DRDKIT_CHEMICALFEATURES_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ChemicalFeatures/FreeChemicalFeature.cpp /<>/Code/SimDivPickers/Wrap/MaxMinPicker.cpp: In member function ‘RDKit::INT_VECT RDPickers::MaxMinPicker::lazyPick(T&, unsigned int, unsigned int, const INT_VECT&, int, double&) const [with T = RDPickers::pyobjFunctor]’: /<>/Code/SimDivPickers/Wrap/MaxMinPicker.cpp:63:48: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 63 | return python::extract(dp_obj(i, j)); | ^ /<>/Code/SimDivPickers/Wrap/MaxMinPicker.cpp:63:48: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 63 | return python::extract(dp_obj(i, j)); | ^ [ 17%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/ML/InfoTheory/InfoBitRanker.h:15, from /<>/Code/ML/InfoTheory/InfoBitRanker.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::pair&}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/ML/InfoTheory/InfoBitRanker.h:15, from /<>/Code/ML/InfoTheory/InfoBitRanker.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In member function ‘double* RDInfoTheory::InfoBitRanker::getTopN(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 17%] Linking CXX shared library ../../lib/libRDKitChemicalFeatures.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitChemicalFeatures.so.1 -o ../../lib/libRDKitChemicalFeatures.so.1.2019.03.1 CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitChemicalFeatures.so.1.2019.03.1 ../../lib/libRDKitChemicalFeatures.so.1 ../../lib/libRDKitChemicalFeatures.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Built target ChemicalFeatures make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake --color= Scanning dependencies of target GraphMol make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Atom.cpp [ 17%] Linking CXX shared library ../../../lib/libRDKitInfoTheory.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitInfoTheory.so.1 -o ../../../lib/libRDKitInfoTheory.so.1.2019.03.1 CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitInfoTheory.so.1.2019.03.1 ../../../lib/libRDKitInfoTheory.so.1 ../../../lib/libRDKitInfoTheory.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Built target InfoTheory make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= Scanning dependencies of target Alignment make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Building CXX object Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment && /usr/bin/c++ -DAlignment_EXPORTS -DRDKIT_ALIGNMENT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Numerics/Alignment/AlignPoints.cpp [ 17%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/Wrap/SparseIntVect.cpp [ 17%] Linking CXX shared library ../../../lib/libRDKitAlignment.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitAlignment.so.1 -o ../../../lib/libRDKitAlignment.so.1.2019.03.1 CMakeFiles/Alignment.dir/AlignPoints.cpp.o ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1 ../../../lib/libRDKitAlignment.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Built target Alignment make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= Scanning dependencies of target testGrid make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Building CXX object Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/Geometry/testGrid.cpp [ 17%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/Atom.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 17%] Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/SimDivFilters/rdSimDivPickers.so CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o ../../../lib/libRDKitSimDivPickers.so.1.2019.03.1 ../../../lib/libRDKithc.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/QueryAtom.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Built target rdSimDivPickers make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake --color= [ 17%] Linking CXX executable testGrid Scanning dependencies of target testTransforms cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGrid.dir/link.txt --verbose=1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testGrid.dir/testGrid.cpp.o -o testGrid ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 17%] Building CXX object Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/Geometry/testTransforms.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Built target testGrid make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= Scanning dependencies of target rdGeometry make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 17%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Geometry/Wrap/Point.cpp [ 18%] Linking CXX executable testTransforms cd /<>/obj-arm-linux-gnueabihf/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testTransforms.dir/testTransforms.cpp.o -o testTransforms ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Built target testTransforms make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= Scanning dependencies of target testAlignment make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Building CXX object Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment && /usr/bin/c++ -DRDKIT_ALIGNMENT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/Numerics/Alignment/testAlignment.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryBond.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/QueryBond.cpp In file included from /<>/Code/DataStructs/Wrap/SparseIntVect.cpp:18: /<>/Code/RDBoost/PySequenceHolder.h: In function ‘void {anonymous}::pyUpdateFromSequence(RDKit::SparseIntVect&, boost::python::api::object&) [with IndexType = long long int]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ /<>/Code/RDBoost/PySequenceHolder.h: In function ‘void {anonymous}::pyUpdateFromSequence(RDKit::SparseIntVect&, boost::python::api::object&) [with IndexType = long long unsigned int]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ [ 18%] Linking CXX executable testAlignment cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testAlignment.dir/testAlignment.cpp.o -o testAlignment ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 18%] 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 '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Alignment/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake --color= Scanning dependencies of target rdAlignment make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Building CXX object Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdAlignment_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Numerics/Alignment/Wrap/rdAlignment.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Bond.cpp [ 18%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Geometry/Wrap/UniformGrid3D.cpp In file included from /<>/Code/Numerics/Alignment/Wrap/rdAlignment.cpp:16: /<>/Code/RDBoost/PySequenceHolder.h: In member function ‘T PySequenceHolder::operator[](unsigned int) const [with T = double]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ [ 18%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/Wrap/wrap_SparseBV.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolOps.cpp [ 18%] Linking CXX shared module ../../../../rdkit/Numerics/rdAlignment.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Numerics/rdAlignment.so CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Built target rdAlignment make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/InfoTheory/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= Scanning dependencies of target rdInfoTheory make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp [ 19%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Geometry/Wrap/rdGeometry.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/MolOps.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/MolOps.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 19%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/MolOps.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/MolOps.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘std::map > RDKit::MolOps::getMolFragsWithQuery(const RDKit::ROMol&, T (*)(const RDKit::ROMol&, const RDKit::Atom*), bool, const std::vector*, bool) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘std::map > RDKit::MolOps::getMolFragsWithQuery(const RDKit::ROMol&, T (*)(const RDKit::ROMol&, const RDKit::Atom*), bool, const std::vector*, bool) [with T = int]’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 19%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp /usr/include/c++/9/bits/stl_vector.h: In function ‘std::map > RDKit::MolOps::getMolFragsWithQuery(const RDKit::ROMol&, T (*)(const RDKit::ROMol&, const RDKit::Atom*), bool, const std::vector*, bool) [with T = unsigned int]’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/MolOps.cpp:11: /usr/include/c++/9/bits/vector.tcc: In function ‘std::vector > RDKit::MolOps::getMolFrags(const RDKit::ROMol&, bool, RDKit::INT_VECT*, RDKit::VECT_INT_VECT*, bool)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/MolOps.cpp:11: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FindRings.cpp [ 20%] Linking CXX shared module ../../../rdkit/Geometry/rdGeometry.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 20%] Built target rdGeometry make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/Data /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/Data /<>/obj-arm-linux-gnueabihf/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= Scanning dependencies of target cQuantize make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 20%] Building CXX object Code/ML/Data/CMakeFiles/cQuantize.dir/cQuantize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/Data && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcQuantize_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ML/Data/cQuantize.cpp [ 20%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp [ 20%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/Wrap/wrap_BitOps.cpp [ 20%] Linking CXX shared module ../../../rdkit/ML/Data/cQuantize.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ML/Data/cQuantize.so CMakeFiles/cQuantize.dir/cQuantize.cpp.o ../../../lib/libRDKitInfoTheory.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 20%] Built target cQuantize make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target testChemicalFeatures make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Building CXX object Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures && /usr/bin/c++ -DRDKIT_CHEMICALFEATURES_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/ChemicalFeatures/testChemicalFeatures.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FindRings.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 21%] Linking CXX executable testChemicalFeatures cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -o testChemicalFeatures ../../lib/libRDKitChemicalFeatures.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Built target testChemicalFeatures [ 21%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/Wrap/wrap_FPB.cpp [ 21%] Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Built target rdInfoTheory [ 22%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DataStructs/Wrap/wrap_Utils.cpp [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ROMol.cpp [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/RWMol.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/ROMol.cpp:17: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/PeriodicTable.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/RWMol.h:21, from /<>/Code/GraphMol/RWMol.cpp:16: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/RWMol.h:21, from /<>/Code/GraphMol/RWMol.cpp:16: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::vector >]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/RWMol.h:21, from /<>/Code/GraphMol/RWMol.cpp:16: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/ROMol.cpp:17: /usr/include/c++/9/bits/stl_vector.h: In member function ‘unsigned int RDKit::ROMol::addAtom(RDKit::Atom*, bool, bool)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/RWMol.h:21, from /<>/Code/GraphMol/RWMol.cpp:16: /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::RWMol::insertMol(const RDKit::ROMol&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/PeriodicTable.h:15, from /<>/Code/GraphMol/PeriodicTable.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDKit::atomicData&}; _Tp = RDKit::atomicData; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In member function ‘unsigned int RDKit::RWMol::addAtom(bool)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/atomic_data.cpp In file included from /usr/include/c++/9/vector:67, from /<>/Code/GraphMol/PeriodicTable.h:15, from /<>/Code/GraphMol/PeriodicTable.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::PeriodicTable::PeriodicTable()’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/QueryOps.cpp [ 23%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolPickler.cpp [ 23%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Canon.cpp [ 23%] Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 23%] Built target cDataStructs [ 23%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/AtomIterators.cpp In file included from /<>/Code/GraphMol/MolPickler.h:19, from /<>/Code/GraphMol/MolPickler.cpp:12: /<>/Code/RDGeneral/StreamOps.h: In function ‘bool RDKit::isSerializable(const RDKit::Dict::Pair&, const CustomPropHandlerVec&)’: /<>/Code/RDGeneral/StreamOps.h:353:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 353 | } | ^ /<>/Code/RDGeneral/StreamOps.h:354:5: note: here 354 | default: | ^~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Canon.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 23%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/BondIterators.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolPickler.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolPickler.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 23%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Aromaticity.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolPickler.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 23%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Kekulize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Kekulize.cpp.o -c /<>/Code/GraphMol/Kekulize.cpp [ 24%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolDiscriminators.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolDiscriminators.cpp.o -c /<>/Code/GraphMol/MolDiscriminators.cpp In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolPickler.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In static member function ‘static void RDKit::MolPickler::_addAtomFromPickleV1(std::istream&, RDKit::ROMol*)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Aromaticity.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/MolOps.h:15, from /<>/Code/GraphMol/MolDiscriminators.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 24%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o -c /<>/Code/GraphMol/ConjugHybrid.cpp [ 24%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AddHs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/AddHs.cpp [ 24%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Matrices.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Matrices.cpp.o -c /<>/Code/GraphMol/Matrices.cpp [ 24%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Chirality.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Chirality.cpp.o -c /<>/Code/GraphMol/Chirality.cpp [ 24%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RingInfo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/RingInfo.cpp.o -c /<>/Code/GraphMol/RingInfo.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/Matrices.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/AddHs.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/AddHs.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/AddHs.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 24%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Conformer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Conformer.cpp.o -c /<>/Code/GraphMol/Conformer.cpp [ 25%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Renumber.cpp.o -c /<>/Code/GraphMol/Renumber.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Chirality.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/AddHs.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::{anonymous}::setHydrogenCoords(RDKit::ROMol*, unsigned int, unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/Conformer.h:14, from /<>/Code/GraphMol/Conformer.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/Renumber.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/Renumber.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/Renumber.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/Conformer.h:14, from /<>/Code/GraphMol/Conformer.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In copy constructor ‘RDKit::Conformer::Conformer(const RDKit::Conformer&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 25%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/AdjustQuery.cpp /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 25%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Resonance.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Resonance.cpp In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/Renumber.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In function ‘RDKit::ROMol* RDKit::MolOps::renumberAtoms(const RDKit::ROMol&, const std::vector&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 25%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/StereoGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/StereoGroup.cpp [ 25%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/new_canon.cpp [ 25%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SubstanceGroup.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/SubstanceGroup.h:22, from /<>/Code/GraphMol/SubstanceGroup.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::array&}; _Tp = std::array; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/SubstanceGroup.h:22, from /<>/Code/GraphMol/SubstanceGroup.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::SubstanceGroup::addBracket(const Bracket&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/SubstanceGroup.h:22, from /<>/Code/GraphMol/SubstanceGroup.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::SubstanceGroup::CState}; _Tp = RDKit::SubstanceGroup::CState; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::SubstanceGroup::addCState(unsigned int, const RDGeom::Point3D&)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In constructor ‘RDKit::SubstanceGroup::SubstanceGroup(RDKit::ROMol*, const string&)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Resonance.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void RDKit::ResonanceUtils::fixExplicitImplicitHs(RDKit::ROMol&)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 26%] Linking CXX shared library ../../lib/libRDKitGraphMol.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitGraphMol.so.1 -o ../../lib/libRDKitGraphMol.so.1.2019.03.1 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 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1 ../../lib/libRDKitGraphMol.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 26%] Built target GraphMol make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake --color= make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target Trajectory make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' Scanning dependencies of target SubstructMatch make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build Scanning dependencies of target MolTransforms make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 26%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o Scanning dependencies of target SmilesParse cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_TRAJECTORY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DTrajectory_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Trajectory/Trajectory.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o [ 27%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SmilesParse/SmilesParse.cpp cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructMatch_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Substruct/SubstructMatch.cpp [ 27%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms && /usr/bin/c++ -DMolTransforms_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLTRANSFORMS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolTransforms/MolTransforms.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/Trajectory/Trajectory.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/Trajectory/Trajectory.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/Trajectory/Trajectory.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDKit::Snapshot&}; _Tp = RDKit::Snapshot; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(std::vector<_Tp, _Alloc>::const_iterator, const value_type&) [with _Tp = RDKit::Snapshot; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:130:5: note: parameter passing for argument of type ‘std::vector::const_iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 130 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:161:2: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ^~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/Trajectory/Trajectory.cpp: In member function ‘unsigned int RDKit::Trajectory::insertSnapshot(unsigned int, RDKit::Snapshot)’: /<>/Code/GraphMol/Trajectory/Trajectory.cpp:73:74: note: parameter passing for argument of type ‘std::vector::const_iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 73 | return (d_snapshotVect->insert(d_snapshotVect->begin() + snapshotNum, s) - | ^ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/Trajectory/Trajectory.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In member function ‘unsigned int RDKit::Trajectory::addConformersToMol(RDKit::ROMol&, int, int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/RWMol.h:21, from /<>/Code/GraphMol/SmilesParse/SmilesParse.h:14, from /<>/Code/GraphMol/SmilesParse/SmilesParse.cpp:26: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 27%] Linking CXX shared library ../../../lib/libRDKitTrajectory.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/Trajectory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitTrajectory.so.1 -o ../../../lib/libRDKitTrajectory.so.1.2019.03.1 CMakeFiles/Trajectory.dir/Trajectory.cpp.o ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1 ../../../lib/libRDKitTrajectory.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Built target Trajectory make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake --color= Scanning dependencies of target Subgraphs make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubgraphs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/<>/External/boost-numeric-bindings -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Subgraphs/Subgraphs.cpp [ 27%] Linking CXX shared library ../../../lib/libRDKitMolTransforms.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolTransforms.so.1 -o ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1 ../../../lib/libRDKitMolTransforms.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Built target MolTransforms make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake --color= Scanning dependencies of target PartialCharges make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/c++ -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/PartialCharges/GasteigerCharges.cpp [ 27%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o -c /<>/Code/GraphMol/SmilesParse/SmilesParseOps.cpp [ 27%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructMatch_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Substruct/SubstructUtils.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/PartialCharges/GasteigerCharges.h:14, from /<>/Code/GraphMol/PartialCharges/GasteigerCharges.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 27%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubgraphs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/<>/External/boost-numeric-bindings -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o -c /<>/Code/GraphMol/Subgraphs/SubgraphUtils.cpp In file included from /usr/include/c++/9/vector:67, from /<>/Code/GraphMol/PartialCharges/GasteigerCharges.h:14, from /<>/Code/GraphMol/PartialCharges/GasteigerCharges.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::computeGasteigerCharges(const RDKit::ROMol&, std::vector&, int, bool)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 27%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/c++ -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/PartialCharges/GasteigerParams.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/SmilesParse/SmilesParseOps.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 27%] Linking CXX shared library ../../../lib/libRDKitSubstructMatch.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubstructMatch.so.1 -o ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1 ../../../lib/libRDKitSubstructMatch.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Built target SubstructMatch make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolTransforms/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolTransforms make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Building CXX object Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolTransforms_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/Subgraphs/Subgraphs.h:32, from /<>/Code/GraphMol/Subgraphs/SubgraphUtils.h:14, from /<>/Code/GraphMol/Subgraphs/SubgraphUtils.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/GraphMol/Subgraphs/Subgraphs.h:32, from /<>/Code/GraphMol/Subgraphs/SubgraphUtils.h:14, from /<>/Code/GraphMol/Subgraphs/SubgraphUtils.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘RDKit::ROMol* RDKit::Subgraphs::pathToSubmol(const RDKit::ROMol&, const PATH_TYPE&, bool, RDKit::INT_MAP_INT&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 27%] Linking CXX shared library ../../../lib/libRDKitPartialCharges.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/PartialCharges.dir/link.txt --verbose=1 [ 27%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SmilesParse/SmilesWrite.cpp /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitPartialCharges.so.1 -o ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1 ../../../lib/libRDKitPartialCharges.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Built target PartialCharges make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target ShapeHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Subgraphs.dir/link.txt --verbose=1 [ 28%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubgraphs.so.1 -o ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DShapeHelpers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ShapeHelpers/ShapeEncoder.cpp cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1 ../../../lib/libRDKitSubgraphs.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Built target Subgraphs make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target MolCatalog make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/c++ -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolCatalog/MolCatalogEntry.cpp [ 28%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DShapeHelpers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/SmilesParse/SmilesWrite.h:15, from /<>/Code/GraphMol/SmilesParse/SmilesWrite.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 28%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/c++ -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolCatalog/MolCatalogParams.cpp [ 28%] Linking CXX shared library ../../../lib/libRDKitMolCatalog.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolCatalog.so.1 -o ../../../lib/libRDKitMolCatalog.so.1.2019.03.1 CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolCatalog.so.1.2019.03.1 ../../../lib/libRDKitMolCatalog.so.1 ../../../lib/libRDKitMolCatalog.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Built target MolCatalog make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake --color= Scanning dependencies of target MolInterchange make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Parser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/c++ -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/rapidjson -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolInterchange.dir/Parser.cpp.o -c /<>/Code/GraphMol/MolInterchange/Parser.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.h:14, from /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.h:14, from /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘std::vector RDKit::MolShapes::getConfDimensions(const RDKit::Conformer&, double, const RDGeom::Point3D*, bool)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 28%] Linking CXX shared library ../../../lib/libRDKitShapeHelpers.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitShapeHelpers.so.1 -o ../../../lib/libRDKitShapeHelpers.so.1.2019.03.1 CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 28%] Linking CXX shared module ../../../../rdkit/Chem/rdMolTransforms.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolTransforms.so CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitShapeHelpers.so.1.2019.03.1 ../../../lib/libRDKitShapeHelpers.so.1 ../../../lib/libRDKitShapeHelpers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Built target ShapeHelpers make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake --color= Scanning dependencies of target SLNParse make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNParse.cpp.o make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/SLNParse.cpp.o -c /<>/Code/GraphMol/SLNParse/SLNParse.cpp [ 28%] Built target rdMolTransforms make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake --color= Scanning dependencies of target rdqueries make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/rdqueries.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/rdqueries.cpp [ 28%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SmilesParse/SmartsWrite.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolInterchange/Parser.cpp:16: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolInterchange/Parser.cpp:16: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 28%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/Queries.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolInterchange/Parser.cpp:16: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolInterchange/Parser.cpp:16: /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::MolInterchange::{anonymous}::readConformer(RDKit::Conformer*, const Value&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function.hpp:30, from /usr/include/boost/algorithm/string/detail/find_iterator.hpp:18, from /usr/include/boost/algorithm/string/find_iterator.hpp:24, from /usr/include/boost/algorithm/string/iter_find.hpp:27, from /usr/include/boost/algorithm/string/split.hpp:16, from /usr/include/boost/algorithm/string.hpp:23, from /<>/Code/GraphMol/SmilesParse/SmartsWrite.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/SLNParse/SLNParse.cpp:35: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void RDKit::SLNParse::finalizeQueryMol(RDKit::ROMol*, bool)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘std::string RDKit::{anonymous}::getAtomSmartsSimple(const RDKit::QueryAtom*, const ATOM_EQUALS_QUERY*, bool&)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘std::string RDKit::SmartsWrite::GetAtomSmarts(const RDKit::QueryAtom*)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘std::string RDKit::MolToSmarts(RDKit::ROMol&, bool)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 29%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Writer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/c++ -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/rapidjson -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolInterchange/Writer.cpp [ 29%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SmilesParse/CXSmilesOps.cpp In file included from /<>/Code/GraphMol/QueryAtom.h:16, from /<>/Code/GraphMol/RDKitQueries.h:21, from /<>/Code/GraphMol/Wrap/Queries.cpp:15: /<>/Code/GraphMol/QueryOps.h: In instantiation of ‘bool RDKit::HasPropWithValueQuery::Match(TargetPtr) const [with TargetPtr = const RDKit::Atom*]’: /<>/Code/GraphMol/QueryOps.h:949:16: required from here /<>/Code/GraphMol/QueryOps.h:956:9: warning: catching polymorphic type ‘class KeyErrorException’ by value [-Wcatch-value=] 956 | } catch (KeyErrorException) { | ^~~~~ /<>/Code/GraphMol/QueryOps.h:958:9: warning: catching polymorphic type ‘class boost::bad_any_cast’ by value [-Wcatch-value=] 958 | } catch (boost::bad_any_cast) { | ^~~~~ [ 29%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o -c /<>/Code/GraphMol/SLNParse/SLNAttribs.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function.hpp:30, from /usr/include/boost/algorithm/string/detail/find_iterator.hpp:18, from /usr/include/boost/algorithm/string/find_iterator.hpp:24, from /usr/include/boost/algorithm/string/iter_find.hpp:27, from /usr/include/boost/algorithm/string/split.hpp:16, from /usr/include/boost/algorithm/string.hpp:23, from /<>/Code/GraphMol/SmilesParse/CXSmilesOps.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function.hpp:30, from /usr/include/boost/algorithm/string/detail/find_iterator.hpp:18, from /usr/include/boost/algorithm/string/find_iterator.hpp:24, from /usr/include/boost/algorithm/string/iter_find.hpp:27, from /usr/include/boost/algorithm/string/split.hpp:16, from /usr/include/boost/algorithm/string.hpp:23, from /<>/Code/GraphMol/SmilesParse/CXSmilesOps.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function.hpp:30, from /usr/include/boost/algorithm/string/detail/find_iterator.hpp:18, from /usr/include/boost/algorithm/string/find_iterator.hpp:24, from /usr/include/boost/algorithm/string/iter_find.hpp:27, from /usr/include/boost/algorithm/string/split.hpp:16, from /usr/include/boost/algorithm/string.hpp:23, from /<>/Code/GraphMol/SmilesParse/CXSmilesOps.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 29%] Linking CXX shared library ../../../lib/libRDKitMolInterchange.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolInterchange.so.1 -o ../../../lib/libRDKitMolInterchange.so.1.2019.03.1 CMakeFiles/MolInterchange.dir/Parser.cpp.o CMakeFiles/MolInterchange.dir/Writer.cpp.o ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolInterchange.so.1.2019.03.1 ../../../lib/libRDKitMolInterchange.so.1 ../../../lib/libRDKitMolInterchange.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target MolInterchange make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake --color= Scanning dependencies of target rdtrajectory make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdtrajectory_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/Trajectory.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/SLNParse/SLNAttribs.h:39, from /<>/Code/GraphMol/SLNParse/SLNAttribs.cpp:37: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function.hpp:30, from /usr/include/boost/algorithm/string/detail/find_iterator.hpp:18, from /usr/include/boost/algorithm/string/find_iterator.hpp:24, from /usr/include/boost/algorithm/string/iter_find.hpp:27, from /usr/include/boost/algorithm/string/split.hpp:16, from /usr/include/boost/algorithm/string.hpp:23, from /<>/Code/GraphMol/SmilesParse/CXSmilesOps.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘bool SmilesParseOps::parser::parse_coords(Iterator&, Iterator, RDKit::RWMol&) [with Iterator = __gnu_cxx::__normal_iterator >]’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 29%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SLNParse/sln.tab.cpp [ 29%] Linking CXX shared module ../../../rdkit/Chem/rdqueries.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target rdqueries make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target rdChemicalFeatures make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemicalFeatures_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ChemicalFeatures/Wrap/rdChemicalFeatures.cpp [ 29%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SmilesParse/smarts.tab.cpp [ 29%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemicalFeatures_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp In file included from /usr/include/c++/9/vector:72, from sln.yy:41: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 29%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdtrajectory_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/rdTrajectory.cpp In file included from /usr/include/c++/9/vector:72, from smarts.yy:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 29%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SLNParse/lex.yysln.cpp [ 30%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SmilesParse/smiles.tab.cpp [ 31%] Linking CXX shared module ../../../rdkit/Chem/rdtrajectory.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Built target rdtrajectory make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake --color= Scanning dependencies of target Optimizer make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/c++ -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Numerics/Optimizer/BFGSOpt.cpp [ 31%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/LinearSearch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/c++ -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/Numerics/Optimizer/LinearSearch.cpp [ 32%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target rdChemicalFeatures make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/PartialCharges/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/DependInfo.cmake --color= Scanning dependencies of target rdPartialCharges make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdPartialCharges_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp In file included from /usr/include/c++/9/vector:72, from smiles.yy:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 32%] Linking CXX shared library ../../../lib/libRDKitSLNParse.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSLNParse.so.1 -o ../../../lib/libRDKitSLNParse.so.1.2019.03.1 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.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSLNParse.so.1.2019.03.1 ../../../lib/libRDKitSLNParse.so.1 ../../../lib/libRDKitSLNParse.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target SLNParse make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ShapeHelpers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= [ 33%] Linking CXX shared library ../../../lib/libRDKitOptimizer.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitOptimizer.so.1 -o ../../../lib/libRDKitOptimizer.so.1.2019.03.1 CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread Scanning dependencies of target rdShapeHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Building CXX object Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdShapeHelpers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1 ../../../lib/libRDKitOptimizer.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Built target Optimizer make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolInterchange make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Building CXX object Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolInterchange_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/rapidjson -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolInterchange/Wrap/rdMolInterchange.cpp [ 33%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SmilesParse/lex.yysmarts.cpp [ 33%] Linking CXX shared module ../../../../rdkit/Chem/rdPartialCharges.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdPartialCharges.so CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o ../../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Built target rdPartialCharges make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField /<>/obj-arm-linux-gnueabihf/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= Scanning dependencies of target ForceField make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/ForceField.cpp In file included from /<>/Code/GraphMol/Conformer.h:14, from /<>/Code/GraphMol/ROMol.h:36, from /<>/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: /<>/Code/Geometry/point.h: In function ‘boost::python::tuple RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)’: /<>/Code/Geometry/point.h:56:31: warning: ‘*((void*)(&)+16).RDGeom::Point3D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:43: warning: ‘*((void*)(&)+16).RDGeom::Point3D::y’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:55: warning: ‘*((void*)(&)+16).RDGeom::Point3D::z’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:31: warning: ‘*((void*)(&)+16).RDGeom::Point3D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:43: warning: ‘*((void*)(&)+16).RDGeom::Point3D::y’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:55: warning: ‘*((void*)(&)+16).RDGeom::Point3D::z’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:31: warning: ‘*((void*)(&)+16).RDGeom::Point3D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:43: warning: ‘*((void*)(&)+16).RDGeom::Point3D::y’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:55: warning: ‘*((void*)(&)+16).RDGeom::Point3D::z’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:31: warning: ‘*((void*)(&)+16).RDGeom::Point3D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:43: warning: ‘*((void*)(&)+16).RDGeom::Point3D::y’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /<>/Code/Geometry/point.h:56:55: warning: ‘*((void*)(&)+16).RDGeom::Point3D::z’ may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ [ 33%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SmilesParse/lex.yysmiles.cpp [ 33%] Linking CXX shared module ../../../../rdkit/Chem/rdMolInterchange.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolInterchange.so CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o ../../../../lib/libRDKitMolInterchange.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Built target rdMolInterchange make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake --color= Scanning dependencies of target testOptimizer make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/Numerics/Optimizer/testOptimizer.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/ForceField/ForceField.h:14, from /<>/Code/ForceField/ForceField.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDKit::Snapshot&}; _Tp = RDKit::Snapshot; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/Code/ForceField/ForceField.h:14, from /<>/Code/ForceField/ForceField.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In member function ‘double ForceFields::ForceField::calcEnergy(std::vector*) const’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘int BFGSOpt::minimize(unsigned int, double*, double, unsigned int&, double&, EnergyFunctor, GradientFunctor, unsigned int, RDKit::SnapshotVect*, double, unsigned int) [with EnergyFunctor = ForceFieldsHelper::calcEnergy; GradientFunctor = ForceFieldsHelper::calcGradient]’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 33%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/UFF/AngleBend.cpp [ 33%] Linking CXX shared module ../../../../rdkit/Chem/rdShapeHelpers.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdShapeHelpers.so CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o ../../../../lib/libRDKitShapeHelpers.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Built target rdShapeHelpers [ 33%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/UFF/BondStretch.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/Trajectory/Snapshot.h:14, from /<>/Code/Numerics/Optimizer/BFGSOpt.h:13, from /<>/Code/Numerics/Optimizer/testOptimizer.cpp:16: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDKit::Snapshot&}; _Tp = RDKit::Snapshot; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/Trajectory/Snapshot.h:14, from /<>/Code/Numerics/Optimizer/BFGSOpt.h:13, from /<>/Code/Numerics/Optimizer/testOptimizer.cpp:16: /usr/include/c++/9/bits/stl_vector.h: In function ‘int BFGSOpt::minimize(unsigned int, double*, double, unsigned int&, double&, EnergyFunctor, GradientFunctor, unsigned int, RDKit::SnapshotVect*, double, unsigned int) [with EnergyFunctor = double (*)(double*); GradientFunctor = double (*)(double*, double*)]’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from smiles.ll:25: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 34%] Linking CXX executable testOptimizer cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -o testOptimizer ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 34%] Built target testOptimizer [ 35%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/UFF/Nonbonded.cpp [ 35%] Linking CXX shared library ../../../lib/libRDKitSmilesParse.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSmilesParse.so.1 -o ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 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.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1 ../../../lib/libRDKitSmilesParse.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 35%] Built target SmilesParse make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake --color= make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolIterTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Building CXX object Code/GraphMol/CMakeFiles/graphmolIterTest.dir/itertest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -c /<>/Code/GraphMol/itertest.cpp Scanning dependencies of target test-valgrind make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Building CXX object Code/GraphMol/CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -c /<>/Code/GraphMol/test-valgrind.cpp [ 36%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/UFF/Inversion.cpp [ 36%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/UFF/TorsionAngle.cpp [ 36%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o -c /<>/Code/ForceField/UFF/DistanceConstraint.cpp [ 36%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/UFF/AngleConstraint.cpp [ 36%] Linking CXX executable test-valgrind cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -o test-valgrind ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Built target test-valgrind make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolcpTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Building CXX object Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/cptest.cpp [ 36%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o -c /<>/Code/ForceField/UFF/TorsionConstraint.cpp [ 36%] Linking CXX executable graphmolIterTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolIterTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -o graphmolIterTest ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Built target graphmolIterTest make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolqueryTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Building CXX object Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/querytest.cpp [ 37%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o -c /<>/Code/ForceField/UFF/PositionConstraint.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/cptest.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 37%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Params.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Params.cpp.o -c /<>/Code/ForceField/UFF/Params.cpp In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/cptest.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 37%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o -c /<>/Code/ForceField/MMFF/AngleBend.cpp [ 38%] Linking CXX executable graphmolcpTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolcpTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -o graphmolcpTest ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Built target graphmolcpTest make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolMemTest1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/memtest1.cpp [ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/MMFF/BondStretch.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/querytest.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/MMFF/StretchBend.cpp [ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/MMFF/OopBend.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/memtest1.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o -c /<>/Code/ForceField/MMFF/TorsionAngle.cpp [ 39%] Linking CXX executable graphmolMemTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMemTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -o graphmolMemTest1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Built target graphmolMemTest1 make -f Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/DependInfo.cmake --color= Scanning dependencies of target graphmoltestCanon make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/testCanon.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmoltestCanon.dir/testCanon.cpp.o -c /<>/Code/GraphMol/testCanon.cpp [ 39%] Linking CXX executable graphmolqueryTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolqueryTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -o graphmolqueryTest ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Built target graphmolqueryTest make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolSGroupCatch make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/catch_sgroups.cpp [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o -c /<>/Code/ForceField/MMFF/Nonbonded.cpp [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/MMFF/DistanceConstraint.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/testCanon.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::vector >]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/MMFF/AngleConstraint.cpp [ 39%] Linking CXX executable graphmoltestCanon cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestCanon.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmoltestCanon.dir/testCanon.cpp.o -o graphmoltestCanon ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Built target graphmoltestCanon make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target ChemTransforms make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemTransforms/ChemTransforms.cpp [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/MMFF/TorsionConstraint.cpp [ 39%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemTransforms/MolFragmenter.cpp [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/MMFF/PositionConstraint.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ChemTransforms/ChemTransforms.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ChemTransforms/ChemTransforms.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::{anonymous}::updateSubMolConfs(const RDKit::ROMol&, RDKit::RWMol&, boost::dynamic_bitset<>&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘RDKit::ROMol* RDKit::combineMols(const RDKit::ROMol&, const RDKit::ROMol&, RDGeom::Point3D)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/c++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/MMFF/Params.cpp /usr/include/c++/9/bits/stl_vector.h: In function ‘RDKit::ROMol* RDKit::replaceCore(const RDKit::ROMol&, const RDKit::ROMol&, const MatchVectType&, bool, bool, bool)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/ChemTransforms/MolFragmenter.h:15, from /<>/Code/GraphMol/ChemTransforms/MolFragmenter.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/ChemTransforms/MolFragmenter.h:15, from /<>/Code/GraphMol/ChemTransforms/MolFragmenter.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘RDKit::ROMol* RDKit::MolFragmenter::fragmentOnBonds(const RDKit::ROMol&, const std::vector&, bool, const std::vector >*, const std::vector*, std::vector*)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= Scanning dependencies of target smaTest1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/smatest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/smaTest1.dir/smatest.cpp.o -c /<>/Code/GraphMol/SmilesParse/smatest.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/ForceField/MMFF/Params.h:20, from /<>/Code/ForceField/MMFF/Params.cpp:17: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFPBCI&}; _Tp = ForceFields::MMFF::MMFFPBCI; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFChg&}; _Tp = ForceFields::MMFF::MMFFChg; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFBond&}; _Tp = ForceFields::MMFF::MMFFBond; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFHerschbachLaurie&}; _Tp = ForceFields::MMFF::MMFFHerschbachLaurie; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFCovRadPauEle&}; _Tp = ForceFields::MMFF::MMFFCovRadPauEle; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFAngle&}; _Tp = ForceFields::MMFF::MMFFAngle; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFStbn&}; _Tp = ForceFields::MMFF::MMFFStbn; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFOop&}; _Tp = ForceFields::MMFF::MMFFOop; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFTor&}; _Tp = ForceFields::MMFF::MMFFTor; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ForceFields::MMFF::MMFFVdW&}; _Tp = ForceFields::MMFF::MMFFVdW; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/Code/ForceField/MMFF/Params.h:20, from /<>/Code/ForceField/MMFF/Params.cpp:17: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFPBCICollection::MMFFPBCICollection(std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFChgCollection::MMFFChgCollection(std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFBondCollection::MMFFBondCollection(std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFBndkCollection::MMFFBndkCollection(std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 39%] Linking CXX shared library ../../../lib/libRDKitChemTransforms.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitChemTransforms.so.1 -o ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFHerschbachLaurieCollection::MMFFHerschbachLaurieCollection(std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1 ../../../lib/libRDKitChemTransforms.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Built target ChemTransforms make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= Scanning dependencies of target smiTest2 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_sgroups.cpp:14: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 [ 39%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/test2.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/SmilesParse/test2.cpp /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFCovRadPauEleCollection::MMFFCovRadPauEleCollection(std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_sgroups.cpp:14: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFAngleCollection::MMFFAngleCollection(std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFStbnCollection::MMFFStbnCollection(std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFOopCollection::MMFFOopCollection(bool, std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFTorCollection::MMFFTorCollection(bool, std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘ForceFields::MMFF::MMFFVdWCollection::MMFFVdWCollection(std::string)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 40%] Linking CXX shared library ../../lib/libRDKitForceField.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitForceField.so.1 -o ../../lib/libRDKitForceField.so.1.2019.03.1 CMakeFiles/ForceField.dir/ForceField.cpp.o CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/Params.cpp.o CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/ForceField && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1 ../../lib/libRDKitForceField.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 40%] Built target ForceField make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target FilterCatalog make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 40%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/Filters.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/Filters.cpp.o -c /<>/Code/GraphMol/FilterCatalog/Filters.cpp In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_sgroups.cpp:14: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 40%] Linking CXX executable smiTest2 cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/smiTest2.dir/test2.cpp.o -o smiTest2 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 40%] Built target smiTest2 make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake --color= Scanning dependencies of target Fingerprints make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 40%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/Fingerprints.cpp [ 40%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FilterCatalog/FilterCatalog.cpp In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Fingerprints/Fingerprints.cpp:11: /usr/include/c++/9/bits/stl_algo.h: In function ‘_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’: /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 112 | __find_if(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/Fingerprints.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/set:60, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/Fingerprints.cpp:11: /usr/include/c++/9/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long long unsigned int; _Val = std::pair > >; _KeyOfValue = std::_Select1st > > >; _Compare = std::less; _Alloc = std::allocator > > >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator > > >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/GraphMol/RDKitBase.h:21, from /<>/Code/GraphMol/Fingerprints/Fingerprints.cpp:11: /usr/include/c++/9/bits/stl_algo.h: In function ‘RDKit::SparseIntVect* RDKit::getUnfoldedRDKFingerprintMol(const RDKit::ROMol&, unsigned int, unsigned int, bool, bool, bool, std::vector*, const std::vector*, std::vector >*, std::map > >*)’: /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/Fingerprints.cpp:11: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:26, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/Fingerprints.cpp:11: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree > >, std::_Select1st > > >, std::less, std::allocator > > > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator > > >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /<>/Code/GraphMol/Fingerprints/Fingerprints.cpp:812:1: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 812 | } | ^ [ 40%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/PatternFingerprints.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FilterCatalog/FilterCatalog.h:36, from /<>/Code/GraphMol/FilterCatalog/FilterCatalog.cpp:32: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 41%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/MorganFingerprints.cpp [ 42%] Linking CXX executable smaTest1 cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/smaTest1.dir/smatest.cpp.o -o smaTest1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread /usr/include/c++/9/bits/vector.tcc: In member function ‘void boost::archive::detail::iserializer::load_object_data(boost::archive::detail::basic_iarchive&, void*, unsigned int) const [with Archive = boost::archive::text_iarchive; T = RDKit::FilterCatalogEntry]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 42%] Built target smaTest1 make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/DependInfo.cmake --color= Scanning dependencies of target testSubgraphs2 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 42%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/test2.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/Subgraphs/test2.cpp [ 43%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp [ 44%] Linking CXX executable testSubgraphs2 cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testSubgraphs2.dir/test2.cpp.o -o testSubgraphs2 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Built target testSubgraphs2 make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake --color= Scanning dependencies of target testSubgraphs1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/<>/External/boost-numeric-bindings -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/Subgraphs/test1.cpp [ 45%] Linking CXX executable graphmolSGroupCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolSGroupCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -o graphmolSGroupCatch ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 45%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/AtomPairs.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 45%] Built target graphmolSGroupCatch make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target FragCatalog make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 45%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/FragCatalogUtils.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h:36, from /<>/Code/GraphMol/FilterCatalog/Filters.h:36, from /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp:32: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/FragCatalog/FragCatalogUtils.cpp:14: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/set:60, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/AtomPairs.cpp:11: /usr/include/c++/9/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long long int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:26, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/AtomPairs.cpp:11: /usr/include/c++/9/bits/stl_map.h: In function ‘RDKit::SparseIntVect* RDKit::AtomPairs::getTopologicalTorsionFingerprint(const RDKit::ROMol&, unsigned int, const std::vector*, const std::vector*, const std::vector*, bool)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In function ‘void RDKit::AtomPairs::{anonymous}::TorsionFpCalc(T*, const RDKit::ROMol&, unsigned int, unsigned int, const std::vector*, const std::vector*, const std::vector*, bool) [with T = RDKit::SparseIntVect]’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, [ 45%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp [ 45%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/MACCS.cpp [ 45%] Linking CXX executable testSubgraphs1 cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testSubgraphs1.dir/test1.cpp.o -o testSubgraphs1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 45%] Built target testSubgraphs1 make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake --color= Scanning dependencies of target testPartialCharges make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 45%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/PartialCharges/test1.cpp [ 45%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FilterCatalog/FilterMatchers.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/set:60, from /usr/include/boost/graph/adjacency_list.hpp:19, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:11: /usr/include/c++/9/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = double; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 45%] Linking CXX executable testPartialCharges cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testPartialCharges.dir/test1.cpp.o -o testPartialCharges ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread In file included from /usr/include/c++/9/map:61, from /usr/include/boost/detail/container_fwd.hpp:94, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/functional/hash.hpp:6, from /usr/include/boost/unordered/unordered_set.hpp:18, from /usr/include/boost/unordered_set.hpp:17, from /usr/include/boost/graph/adjacency_list.hpp:21, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:11: /usr/include/c++/9/bits/stl_map.h: In function ‘unsigned int RDKit::addOrder1Paths(RDKit::PATH_LIST&, const RDKit::ROMol&, RDKit::FragCatalog*, RDKit::DOUBLE_INT_MAP&, const MatchVectType&)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 45%] Built target testPartialCharges make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target MolChemicalFeatures make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 45%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘unsigned int RDKit::addHigherOrderPaths(const INT_PATH_LIST_MAP&, const RDKit::ROMol&, RDKit::FragCatalog*, RDKit::DOUBLE_INT_MAP&, const MatchVectType&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /usr/include/boost/detail/container_fwd.hpp:94, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/functional/hash.hpp:6, from /usr/include/boost/unordered/unordered_set.hpp:18, from /usr/include/boost/unordered_set.hpp:17, from /usr/include/boost/graph/adjacency_list.hpp:21, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:11: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, [ 45%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp [ 45%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp [ 45%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp [ 45%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/FragCatalog/FragCatParams.h:16, from /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.h:14, from /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 46%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.cpp [ 46%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/FragCatParams.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FilterCatalog/FilterCatalog.h:36, from /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h:36, from /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp:33: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void RDKit::{anonymous}::hierarchy_create()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 46%] Linking CXX shared library ../../../lib/libRDKitFilterCatalog.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFilterCatalog.so.1 -o ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 CMakeFiles/FilterCatalog.dir/Filters.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 46%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp [ 46%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1 ../../../lib/libRDKitFilterCatalog.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Built target FilterCatalog make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= Scanning dependencies of target ReducedGraphs make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_REDUCEDGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DReducedGraphs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ReducedGraphs/ReducedGraphs.cpp [ 47%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 47%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/MorganGenerator.cpp In file included from /usr/include/c++/9/set:60, from /usr/include/boost/graph/adjacency_list.hpp:19, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp:11: /usr/include/c++/9/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = double; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = RDKit::ltDouble; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /usr/include/boost/detail/container_fwd.hpp:94, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/functional/hash.hpp:6, from /usr/include/boost/unordered/unordered_set.hpp:18, from /usr/include/boost/unordered_set.hpp:17, from /usr/include/boost/graph/adjacency_list.hpp:21, from /<>/Code/Catalogs/Catalog.h:18, from /<>/Code/GraphMol/FragCatalog/FragFPGenerator.cpp:11: /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDKit::FragFPGenerator::computeFP(const RDKit::ROMol&, const FragCatalog&, const MatchVectType&, ExplicitBitVect*)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, RDKit::ltDouble, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h:15, from /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.h:17, from /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_range_insert(std::vector<_Tp, _Alloc>::iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 721 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/ReducedGraphs/ReducedGraphs.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 47%] Linking CXX shared library ../../../lib/libRDKitFragCatalog.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFragCatalog.so.1 -o ../../../lib/libRDKitFragCatalog.so.1.2019.03.1 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.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFragCatalog.so.1.2019.03.1 ../../../lib/libRDKitFragCatalog.so.1 ../../../lib/libRDKitFragCatalog.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Built target FragCatalog make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= Scanning dependencies of target testSLNParse make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 48%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/SLNParse/test.cpp /usr/include/c++/9/bits/vector.tcc: In function ‘RDKit::MolChemicalFeatureDef* RDKit::Local::parseFeatureDef(std::istream&, const string&, unsigned int&, const std::map, std::__cxx11::basic_string >&)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h:15, from /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.h:17, from /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp:11: /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 1662 | _M_range_insert(__pos, __first, __last, | ^~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 [ 49%] Linking CXX shared library ../../../lib/libRDKitReducedGraphs.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitReducedGraphs.so.1 -o ../../../lib/libRDKitReducedGraphs.so.1.2019.03.1 CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitReducedGraphs.so.1.2019.03.1 ../../../lib/libRDKitReducedGraphs.so.1 ../../../lib/libRDKitReducedGraphs.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Built target ReducedGraphs make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SLNParse/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake --color= Scanning dependencies of target rdSLNParse make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Building CXX object Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSLNParse_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp [ 49%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolChemicalFeatures.so.1 -o ../../../lib/libRDKitMolChemicalFeatures.so.1.2019.03.1 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.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolChemicalFeatures.so.1.2019.03.1 ../../../lib/libRDKitMolChemicalFeatures.so.1 ../../../lib/libRDKitMolChemicalFeatures.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Built target MolChemicalFeatures make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/DependInfo.cmake --color= Scanning dependencies of target rdchem make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 49%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/rdchem.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/rdchem.cpp [ 50%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp [ 50%] Linking CXX shared module ../../../../rdkit/Chem/rdSLNParse.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSLNParse.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdSLNParse.so CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o ../../../../lib/libRDKitSLNParse.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 50%] Built target rdSLNParse make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target ForceFieldHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 50%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.cpp [ 50%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/FingerprintUtil.cpp [ 50%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o -c /<>/Code/GraphMol/ForceFieldHelpers/UFF/Builder.cpp [ 50%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Table.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/Table.cpp [ 50%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp [ 50%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp [ 50%] Linking CXX executable testSLNParse cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testSLNParse.dir/test.cpp.o -o testSLNParse ../../../lib/libRDKitSLNParse.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 50%] Built target testSLNParse make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolChemicalFeatures make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 51%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.cpp [ 51%] Linking CXX shared library ../../../lib/libRDKitFingerprints.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFingerprints.so.1 -o ../../../lib/libRDKitFingerprints.so.1.2019.03.1 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/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.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1 ../../../lib/libRDKitFingerprints.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 51%] Built target Fingerprints make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= Scanning dependencies of target testReducedGraphs make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 51%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_REDUCEDGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/ReducedGraphs/test1.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 51%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/Atom.cpp [ 51%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp [ 51%] Linking CXX executable testReducedGraphs cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testReducedGraphs.dir/test1.cpp.o -o testReducedGraphs ../../../lib/libRDKitReducedGraphs.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 51%] 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 '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ReducedGraphs/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= Scanning dependencies of target rdReducedGraphs make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 52%] Building CXX object Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdReducedGraphs_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp [ 52%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp [ 52%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp [ 52%] Linking CXX shared module ../../../../rdkit/Chem/rdReducedGraphs.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdReducedGraphs.so CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o ../../../../lib/libRDKitReducedGraphs.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 52%] Built target rdReducedGraphs make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= Scanning dependencies of target SubstructLibrary make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 52%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructLibrary_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SubstructLibrary/SubstructLibrary.cpp [ 52%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Atom.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 53%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.cpp [ 53%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp [ 53%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Bond.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/Bond.cpp [ 53%] Linking CXX shared module ../../../../rdkit/Chem/rdMolChemicalFeatures.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 53%] Built target rdMolChemicalFeatures make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= Scanning dependencies of target rdFingerprintGenerator make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 53%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFingerprintGenerator_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp [ 53%] Linking CXX shared library ../../../lib/libRDKitForceFieldHelpers.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitForceFieldHelpers.so.1 -o ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 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.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1 ../../../lib/libRDKitForceFieldHelpers.so [ 54%] Linking CXX shared library ../../../lib/libRDKitSubstructLibrary.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructLibrary.dir/link.txt --verbose=1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubstructLibrary.so.1 -o ../../../lib/libRDKitSubstructLibrary.so.1.2019.03.1 CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 54%] Built target ForceFieldHelpers make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= Scanning dependencies of target MolAlign make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/c++ -DMolAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolAlign/AlignMolecules.cpp cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructLibrary.so.1.2019.03.1 ../../../lib/libRDKitSubstructLibrary.so.1 ../../../lib/libRDKitSubstructLibrary.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Built target SubstructLibrary make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DistGeom /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DistGeom /<>/obj-arm-linux-gnueabihf/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake --color= Scanning dependencies of target DistGeometry make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 54%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DistGeom/DistGeomUtils.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/Numerics/Vector.h:15, from /<>/Code/Numerics/Matrix.h:15, from /<>/Code/Numerics/SquareMatrix.h:14, from /<>/Code/Geometry/Transform3D.h:16, from /<>/Code/GraphMol/MolAlign/AlignMolecules.h:14, from /<>/Code/GraphMol/MolAlign/AlignMolecules.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 55%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/O3AAlignMolecules.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/c++ -DMolAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/O3AAlignMolecules.cpp.o -c /<>/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp [ 55%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DistGeom/TriangleSmooth.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Bond.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 56%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DistGeom/DistViolationContrib.cpp [ 56%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DistGeom/ChiralViolationContrib.cpp [ 57%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Mol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/Mol.cpp [ 57%] Linking CXX shared module ../../../../rdkit/Chem/rdFingerprintGenerator.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdFingerprintGenerator.so CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Built target rdFingerprintGenerator make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake --color= Scanning dependencies of target rdForceField make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Building CXX object Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceField_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/ForceField/Wrap/ForceField.cpp [ 57%] Linking CXX shared library ../../../lib/libRDKitMolAlign.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolAlign.so.1 -o ../../../lib/libRDKitMolAlign.so.1.2019.03.1 CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o CMakeFiles/MolAlign.dir/O3AAlignMolecules.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1 ../../../lib/libRDKitMolAlign.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Built target MolAlign make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target rdForceFieldHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Building CXX object Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceFieldHelpers_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp [ 57%] Linking CXX shared library ../../lib/libRDKitDistGeometry.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDistGeometry.so.1 -o ../../lib/libRDKitDistGeometry.so.1.2019.03.1 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.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../lib/libRDKitDistGeometry.so.1 ../../lib/libRDKitDistGeometry.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Built target DistGeometry make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= Scanning dependencies of target Depictor make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/RDDepictor.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Depictor.dir/RDDepictor.cpp.o -c /<>/Code/GraphMol/Depictor/RDDepictor.cpp In file included from /<>/Code/GraphMol/Depictor/RDDepictor.cpp:12: /<>/Code/GraphMol/Depictor/EmbeddedFrag.h: In member function ‘RDDepict::EmbeddedAtom RDDepict::EmbeddedFrag::GetEmbeddedAtom(unsigned int) const’: /<>/Code/GraphMol/Depictor/EmbeddedFrag.h:314:18: warning: implicitly-declared ‘RDDepict::EmbeddedAtom::EmbeddedAtom(const RDDepict::EmbeddedAtom&)’ is deprecated [-Wdeprecated-copy] 314 | return posi->second; | ^~~~~~ /<>/Code/GraphMol/Depictor/EmbeddedFrag.h:59:17: note: because ‘RDDepict::EmbeddedAtom’ has user-provided ‘RDDepict::EmbeddedAtom& RDDepict::EmbeddedAtom::operator=(const RDDepict::EmbeddedAtom&)’ 59 | EmbeddedAtom &operator=(const EmbeddedAtom &other) { | ^~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Depictor/RDDepictor.h:15, from /<>/Code/GraphMol/Depictor/RDDepictor.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Depictor/RDDepictor.h:15, from /<>/Code/GraphMol/Depictor/RDDepictor.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘unsigned int RDDepict::copyCoordinate(RDKit::ROMol&, std::__cxx11::list&, bool)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘unsigned int RDKit::CoordGen::addCoords(T&, const RDKit::CoordGen::CoordGenParams*) [with T = RDKit::ROMol]’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘unsigned int RDDepict::compute2DCoords(RDKit::ROMol&, const INT_POINT2D_MAP*, bool, bool, unsigned int, unsigned int, int, bool, bool)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 57%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp /<>/Code/ForceField/Wrap/ForceField.cpp: In member function ‘double ForceFields::PyForceField::calcEnergyWithPos(const boost::python::api::object&)’: /<>/Code/ForceField/Wrap/ForceField.cpp:135:12: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 135 | c[i] = python::extract(pos[i]); /<>/Code/ForceField/Wrap/ForceField.cpp: In member function ‘PyObject* ForceFields::PyForceField::calcGradWithPos(const boost::python::api::object&)’: /<>/Code/ForceField/Wrap/ForceField.cpp:169:12: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 169 | c[i] = python::extract(pos[i]); In file included from /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:17: /<>/Code/GraphMol/Depictor/EmbeddedFrag.h: In member function ‘RDDepict::EmbeddedAtom RDDepict::EmbeddedFrag::GetEmbeddedAtom(unsigned int) const’: /<>/Code/GraphMol/Depictor/EmbeddedFrag.h:314:18: warning: implicitly-declared ‘RDDepict::EmbeddedAtom::EmbeddedAtom(const RDDepict::EmbeddedAtom&)’ is deprecated [-Wdeprecated-copy] 314 | return posi->second; | ^~~~~~ /<>/Code/GraphMol/Depictor/EmbeddedFrag.h:59:17: note: because ‘RDDepict::EmbeddedAtom’ has user-provided ‘RDDepict::EmbeddedAtom& RDDepict::EmbeddedAtom::operator=(const RDDepict::EmbeddedAtom&)’ 59 | EmbeddedAtom &operator=(const EmbeddedAtom &other) { | ^~~~~~~~ /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp: In member function ‘void RDDepict::EmbeddedFrag::addAtomToAtomWithAng(unsigned int, unsigned int)’: /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:710:40: warning: implicitly-declared ‘RDDepict::EmbeddedAtom::EmbeddedAtom(const RDDepict::EmbeddedAtom&)’ is deprecated [-Wdeprecated-copy] 710 | EmbeddedAtom refAtom = d_eatoms[toAid]; | ^ In file included from /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:17: /<>/Code/GraphMol/Depictor/EmbeddedFrag.h:59:17: note: because ‘RDDepict::EmbeddedAtom’ has user-provided ‘RDDepict::EmbeddedAtom& RDDepict::EmbeddedAtom::operator=(const RDDepict::EmbeddedAtom&)’ 59 | EmbeddedAtom &operator=(const EmbeddedAtom &other) { | ^~~~~~~~ /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp: In member function ‘void RDDepict::EmbeddedFrag::addAtomToAtomWithNoAng(unsigned int, unsigned int)’: /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:781:40: warning: implicitly-declared ‘RDDepict::EmbeddedAtom::EmbeddedAtom(const RDDepict::EmbeddedAtom&)’ is deprecated [-Wdeprecated-copy] 781 | EmbeddedAtom refAtom = d_eatoms[toAid]; | ^ In file included from /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:17: /<>/Code/GraphMol/Depictor/EmbeddedFrag.h:59:17: note: because ‘RDDepict::EmbeddedAtom’ has user-provided ‘RDDepict::EmbeddedAtom& RDDepict::EmbeddedAtom::operator=(const RDDepict::EmbeddedAtom&)’ 59 | EmbeddedAtom &operator=(const EmbeddedAtom &other) { | ^~~~~~~~ [ 57%] Linking CXX shared module ../../../../rdkit/Chem/rdForceFieldHelpers.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdForceFieldHelpers.so CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Built target rdForceFieldHelpers make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/CoordGen/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake --color= Scanning dependencies of target rdCoordGen make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Building CXX object External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap && /usr/bin/c++ -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdCoordGen_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/External/CoordGen/Wrap/rdCoordGen.cpp In file included from /usr/include/c++/9/map:60, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:10: /usr/include/c++/9/bits/stl_tree.h: In member function ‘std::pair std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, const key_type&) [with _Key = unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2187:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2187 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:10: /usr/include/c++/9/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryThirdPt(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryDensity(RDDepict::EmbeddedFrag&, unsigned int, unsigned int)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘RDGeom::Transform2D RDDepict::EmbeddedFrag::computeTwoAtomTrans(unsigned int, unsigned int, const INT_POINT2D_MAP&)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::openAngles(const double*, unsigned int, unsigned int)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::updateNewNeighs(unsigned int)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In constructor ‘RDDepict::EmbeddedFrag::EmbeddedFrag(unsigned int, const RDKit::ROMol*)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘std::vector > RDDepict::EmbeddedFrag::findCollisions(const double*, bool)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::addAtomToAtomWithNoAng(unsigned int, unsigned int)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, In file included from /usr/include/c++/9/map:60, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:10: /usr/include/c++/9/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Depictor/EmbeddedFrag.cpp:10: /usr/include/c++/9/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](std::map<_Key, _Tp, _Compare, _Alloc>::key_type&&) [with _Key = unsigned int; _Tp = RDDepict::EmbeddedAtom; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::permuteBonds(unsigned int, unsigned int, unsigned int)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::initFromRingCoords(const INT_VECT&, const INT_POINT2D_MAP&)’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘RDGeom::Transform2D RDDepict::EmbeddedFrag::computeOneAtomTrans(unsigned int, const RDDepict::EmbeddedFrag&)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::addAtomToAtomWithAng(unsigned int, unsigned int)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::addNonRingAtom(unsigned int, unsigned int)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Mol.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::reflectIfNecessaryCisTrans(RDDepict::EmbeddedFrag&, unsigned int, unsigned int, unsigned int)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::computeNbrsAndAng(unsigned int, const INT_VECT&)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In constructor ‘RDDepict::EmbeddedFrag::EmbeddedFrag(const RDKit::ROMol*, const INT_POINT2D_MAP&)’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::mergeWithCommon(RDDepict::EmbeddedFrag&, RDKit::INT_VECT&)’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::mergeFragsWithComm(std::__cxx11::list&)’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::expandEfrag(RDKit::INT_LIST&, std::__cxx11::list&)’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::flipAboutBond(unsigned int, bool)’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::mergeRing(const RDDepict::EmbeddedFrag&, unsigned int, const INT_VECT&)’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::removeCollisionsShortenBonds()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In member function ‘void RDDepict::EmbeddedFrag::randomSampleFlipsAndPermutations(unsigned int, unsigned int, int, const DOUBLE_SMART_PTR*, double, bool)’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, [ 57%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DepictUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Depictor.dir/DepictUtils.cpp.o -c /<>/Code/GraphMol/Depictor/DepictUtils.cpp [ 58%] Linking CXX shared module ../../../rdkit/ForceField/rdForceField.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ForceField/rdForceField.so CMakeFiles/rdForceField.dir/ForceField.cpp.o ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target rdForceField make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target DistGeomHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/External/CoordGen/Wrap/rdCoordGen.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/External/CoordGen/Wrap/rdCoordGen.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘unsigned int RDKit::CoordGen::addCoords(T&, const RDKit::CoordGen::CoordGenParams*) [with T = RDKit::ROMol]’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/Conformer.h:14, from /<>/Code/GraphMol/RDKitBase.h:25, from /<>/External/CoordGen/Wrap/rdCoordGen.cpp:17: /<>/Code/Geometry/point.h: In function ‘void RDKit::{anonymous}::SetCoordMap(RDKit::CoordGen::CoordGenParams*, boost::python::dict&)’: /<>/Code/Geometry/point.h:289:15: warning: ‘*((void*)(&)+16).RDGeom::Point2D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 289 | x = other.x; | ~~~~~~^ [ 58%] Linking CXX shared module ../../../rdkit/Chem/rdCoordGen.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdCoordGen.so CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -lcoordgen -lmaeparser ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target rdCoordGen make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DistGeom /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DistGeom /<>/obj-arm-linux-gnueabihf/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake --color= Scanning dependencies of target testDistGeom make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Building CXX object Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/c++ -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/DistGeom/testDistGeom.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Depictor/DepictUtils.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Depictor/DepictUtils.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘RDDepict::INT_PAIR_VECT RDDepict::findBondsPairsToPermuteDeg4(const RDGeom::Point2D&, const INT_VECT&, const VECT_C_POINT&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 58%] Linking CXX shared library ../../../lib/libRDKitDepictor.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDepictor.so.1 -o ../../../lib/libRDKitDepictor.so.1.2019.03.1 CMakeFiles/Depictor.dir/RDDepictor.cpp.o CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o CMakeFiles/Depictor.dir/DepictUtils.cpp.o ../../../lib/libRDKitMolAlign.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1 ../../../lib/libRDKitDepictor.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 58%] Built target Depictor make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DistGeom/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= Scanning dependencies of target DistGeom make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 59%] Building CXX object Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap && /usr/bin/c++ -DDistGeom_EXPORTS -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/DistGeom/Wrap/DistGeom.cpp [ 59%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/DistGeomHelpers/Embedder.cpp [ 59%] Linking CXX executable testDistGeom cd /<>/obj-arm-linux-gnueabihf/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeom.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -o testDistGeom ../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 59%] Built target testDistGeom make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= Scanning dependencies of target FileParsers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp [ 60%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Conformer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/Conformer.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/DistGeomHelpers/Embedder.h:16, from /<>/Code/GraphMol/DistGeomHelpers/Embedder.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/DistGeomHelpers/Embedder.h:16, from /<>/Code/GraphMol/DistGeomHelpers/Embedder.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp:37: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp:37: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp:37: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 [ 60%] Linking CXX shared module ../../../rdkit/DistanceGeometry/DistGeom.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/DistanceGeometry/DistGeom.so CMakeFiles/DistGeom.dir/DistGeom.cpp.o ../../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Built target DistGeom [ 60%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/RingInfo.cpp /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::DGeomHelpers::detail::embedHelper_(int, int, RDKit::DGeomHelpers::detail::EmbedArgs*, const RDKit::DGeomHelpers::EmbedParameters*)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/Mol2FileParser.cpp:37: /usr/include/c++/9/bits/stl_vector.h: In function ‘RDKit::RWMol* RDKit::Mol2DataStreamToMol(std::istream*, bool, bool, RDKit::Mol2Type, bool)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 60%] Linking CXX shared library ../../../lib/libRDKitDistGeomHelpers.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDistGeomHelpers.so.1 -o ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.1 CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o ../../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.1 ../../../lib/libRDKitDistGeomHelpers.so.1 ../../../lib/libRDKitDistGeomHelpers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 60%] Built target DistGeomHelpers [ 60%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/EditableMol.cpp [ 60%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/MolFileParser.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Conformer.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Conformer.cpp:13: /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/Wrap/Conformer.cpp:20: /<>/Code/RDBoost/PySequenceHolder.h: In member function ‘T PySequenceHolder::operator[](unsigned int) const [with T = double]’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/Conformer.cpp:13: /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::SetAtomPos(RDKit::Conformer*, unsigned int, boost::python::api::object)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 60%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/MonomerInfo.cpp [ 60%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp [ 61%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/MolBundle.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/MolFileParser.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/MolFileParser.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/MolFileParser.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 61%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/StereoGroup.cpp [ 61%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/SubstanceGroup.cpp In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/MolFileParser.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘bool RDKit::FileParserUtils::ParseV2000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::{anonymous}::ParseV3000AtomBlock(std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, RDKit::Conformer*)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 61%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/MolSGroupParsing.cpp [ 61%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/MolSGroupParsing.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function ‘std::string RDKit::SGroupWriting::BuildV2000SDSLines(const RDKit::ROMol&)’: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: ‘%3d’ directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] 24 | snprintf(output, 5, " %3d", value); | ^~~ /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] 24 | snprintf(output, 5, " %3d", value); | ^~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /usr/include/c++/9/ext/string_conversions.h:43, from /usr/include/c++/9/bits/basic_string.h:6493, from /usr/include/c++/9/string:55, from /usr/include/c++/9/bits/locale_classes.h:40, from /usr/include/c++/9/bits/ios_base.h:41, from /usr/include/c++/9/ios:42, from /usr/include/c++/9/ostream:38, from /usr/include/c++/9/iterator:64, 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:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:67:35: note: ‘__builtin___snprintf_chk’ output between 5 and 11 bytes into a destination of size 5 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function ‘std::string RDKit::SGroupWriting::BuildV2000StringPropLines(unsigned int, const RDKit::ROMol&, const string&, const string&, unsigned int)’: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: ‘%3d’ directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] 24 | snprintf(output, 5, " %3d", value); | ^~~ /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] 24 | snprintf(output, 5, " %3d", value); | ^~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /usr/include/c++/9/ext/string_conversions.h:43, from /usr/include/c++/9/bits/basic_string.h:6493, from /usr/include/c++/9/string:55, from /usr/include/c++/9/bits/locale_classes.h:40, from /usr/include/c++/9/bits/ios_base.h:41, from /usr/include/c++/9/ios:42, from /usr/include/c++/9/ostream:38, from /usr/include/c++/9/iterator:64, 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:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:67:35: note: ‘__builtin___snprintf_chk’ output between 5 and 11 bytes into a destination of size 5 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function ‘std::string RDKit::SGroupWriting::BuildV2000STYLines(const RDKit::ROMol&)’: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: ‘%3d’ directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] 24 | snprintf(output, 5, " %3d", value); | ^~~ /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] 24 | snprintf(output, 5, " %3d", value); | ^~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /usr/include/c++/9/ext/string_conversions.h:43, from /usr/include/c++/9/bits/basic_string.h:6493, from /usr/include/c++/9/string:55, from /usr/include/c++/9/bits/locale_classes.h:40, from /usr/include/c++/9/bits/ios_base.h:41, from /usr/include/c++/9/ios:42, from /usr/include/c++/9/ostream:38, from /usr/include/c++/9/iterator:64, 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:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:67:35: note: ‘__builtin___snprintf_chk’ output between 5 and 11 bytes into a destination of size 5 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function ‘std::string RDKit::SGroupWriting::BuildV2000SBTLines(const RDKit::ROMol&)’: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: ‘%3d’ directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] 24 | snprintf(output, 5, " %3d", value); | ^~~ /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] 24 | snprintf(output, 5, " %3d", value); | ^~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /usr/include/c++/9/ext/string_conversions.h:43, from /usr/include/c++/9/bits/basic_string.h:6493, from /usr/include/c++/9/string:55, from /usr/include/c++/9/bits/locale_classes.h:40, from /usr/include/c++/9/bits/ios_base.h:41, from /usr/include/c++/9/ios:42, from /usr/include/c++/9/ostream:38, from /usr/include/c++/9/iterator:64, 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:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:67:35: note: ‘__builtin___snprintf_chk’ output between 5 and 11 bytes into a destination of size 5 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: ‘%3d’ directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] 24 | snprintf(output, 5, " %3d", value); | ^~~ /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] 24 | snprintf(output, 5, " %3d", value); | ^~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /usr/include/c++/9/ext/string_conversions.h:43, from /usr/include/c++/9/bits/basic_string.h:6493, from /usr/include/c++/9/string:55, from /usr/include/c++/9/bits/locale_classes.h:40, from /usr/include/c++/9/bits/ios_base.h:41, from /usr/include/c++/9/ios:42, from /usr/include/c++/9/ostream:38, from /usr/include/c++/9/iterator:64, 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:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:67:35: note: ‘__builtin___snprintf_chk’ output between 5 and 11 bytes into a destination of size 5 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function ‘std::string RDKit::SGroupWriting::BuildV2000SAPLines(int, const RDKit::SubstanceGroup&)’: /<>/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); | ^~~ /<>/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++/9/cstdio:42, from /usr/include/c++/9/ext/string_conversions.h:43, from /usr/include/c++/9/bits/basic_string.h:6493, from /usr/include/c++/9/string:55, from /usr/include/c++/9/bits/locale_classes.h:40, from /usr/include/c++/9/bits/ios_base.h:41, from /usr/include/c++/9/ios:42, from /usr/include/c++/9/ostream:38, from /usr/include/c++/9/iterator:64, 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:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/arm-linux-gnueabihf/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 ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function ‘std::string RDKit::SGroupWriting::BuildV2000SNCLines(const RDKit::ROMol&)’: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: ‘%3d’ directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] 24 | snprintf(output, 5, " %3d", value); | ^~~ /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] 24 | snprintf(output, 5, " %3d", value); | ^~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /usr/include/c++/9/ext/string_conversions.h:43, from /usr/include/c++/9/bits/basic_string.h:6493, from /usr/include/c++/9/string:55, from /usr/include/c++/9/bits/locale_classes.h:40, from /usr/include/c++/9/bits/ios_base.h:41, from /usr/include/c++/9/ios:42, from /usr/include/c++/9/ostream:38, from /usr/include/c++/9/iterator:64, 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:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:67:35: note: ‘__builtin___snprintf_chk’ output between 5 and 11 bytes into a destination of size 5 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function ‘std::string RDKit::SGroupWriting::BuildV2000SLBLines(const RDKit::ROMol&)’: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: ‘%3d’ directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] 24 | snprintf(output, 5, " %3d", value); | ^~~ /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] 24 | snprintf(output, 5, " %3d", value); | ^~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /usr/include/c++/9/ext/string_conversions.h:43, from /usr/include/c++/9/bits/basic_string.h:6493, from /usr/include/c++/9/string:55, from /usr/include/c++/9/bits/locale_classes.h:40, from /usr/include/c++/9/bits/ios_base.h:41, from /usr/include/c++/9/ios:42, from /usr/include/c++/9/ostream:38, from /usr/include/c++/9/iterator:64, 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:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:67:35: note: ‘__builtin___snprintf_chk’ output between 5 and 11 bytes into a destination of size 5 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function ‘std::string RDKit::SGroupWriting::BuildV2000SPLLines(const RDKit::ROMol&)’: /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: ‘%3d’ directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] 24 | snprintf(output, 5, " %3d", value); | ^~~ /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] 24 | snprintf(output, 5, " %3d", value); | ^~~~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /usr/include/c++/9/ext/string_conversions.h:43, from /usr/include/c++/9/bits/basic_string.h:6493, from /usr/include/c++/9/string:55, from /usr/include/c++/9/bits/locale_classes.h:40, from /usr/include/c++/9/bits/ios_base.h:41, from /usr/include/c++/9/ios:42, from /usr/include/c++/9/ostream:38, from /usr/include/c++/9/iterator:64, 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:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /<>/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:67:35: note: ‘__builtin___snprintf_chk’ output between 5 and 11 bytes into a destination of size 5 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 61%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/MolFileStereochem.cpp [ 61%] Linking CXX shared module ../../../rdkit/Chem/rdchem.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 61%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 61%] Built target rdchem [ 61%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -c /<>/Code/GraphMol/FileParsers/SDMolSupplier.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/MolFileStereochem.h:14, from /<>/Code/GraphMol/FileParsers/MolFileStereochem.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void RDKit::ClearSingleBondDirFlags(RDKit::ROMol&)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/SDWriter.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/FileParsers/SDMolSupplier.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::fpos<__mbstate_t>&}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/FileParsers/SDMolSupplier.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual RDKit::ROMol* RDKit::SDMolSupplier::next()’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In member function ‘unsigned int RDKit::SDMolSupplier::length()’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::SDMolSupplier::moveTo(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:13: /usr/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter >]’: /usr/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1820 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1839 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/SmilesWriter.cpp In file included from /usr/include/c++/9/bits/stl_algo.h:61, from /usr/include/c++/9/algorithm:62, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:13: /usr/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Distance = int; _Tp = std::pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:13: /usr/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter >]’: /usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1939 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/TDTMolSupplier.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:13: /usr/include/c++/9/bits/vector.tcc: In function ‘void RDKit::GetMolFileAtomProperties(const RDKit::Atom*, const RDKit::Conformer*, int&, int&, unsigned int&, double&, double&, double&)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/RDGeneral/Invariant.h:22, from /<>/Code/RDGeneral/types.h:27, from /<>/Code/GraphMol/FileParsers/FileParsers.h:14, from /<>/Code/GraphMol/FileParsers/MolFileWriter.cpp:13: /usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1967 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1968 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1969 | __comp); | ~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1889 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/TDTWriter.cpp [ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/TplFileParser.cpp [ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/TplFileWriter.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/token_functions.hpp:34, from /usr/include/boost/token_iterator.hpp:24, from /usr/include/boost/tokenizer.hpp:20, from /<>/Code/GraphMol/FileParsers/TDTMolSupplier.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/token_functions.hpp:34, from /usr/include/boost/token_iterator.hpp:24, from /usr/include/boost/tokenizer.hpp:20, from /<>/Code/GraphMol/FileParsers/TDTMolSupplier.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/token_functions.hpp:34, from /usr/include/boost/token_iterator.hpp:24, from /usr/include/boost/tokenizer.hpp:20, from /<>/Code/GraphMol/FileParsers/TDTMolSupplier.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void RDKit::TDTParseUtils::ParseNumberList(std::string, std::vector&, std::istream*) [with T = double]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/token_functions.hpp:34, from /usr/include/boost/token_iterator.hpp:24, from /usr/include/boost/tokenizer.hpp:20, from /<>/Code/GraphMol/FileParsers/TDTMolSupplier.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In member function ‘RDKit::ROMol* RDKit::TDTMolSupplier::parseMol(std::string)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/PDBParser.cpp [ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/PDBWriter.cpp [ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/PDBSupplier.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/TplFileParser.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/TplFileParser.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/TplFileParser.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/TplFileParser.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::ParseTPLAtomLine(std::string, unsigned int, RDKit::RWMol*, RDKit::Conformer*)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘RDKit::Conformer* RDKit::ParseConfData(std::istream*, unsigned int&, RDKit::RWMol*, unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp [ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/ProximityBonds.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/PDBParser.cpp:16: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/PDBParser.cpp:16: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/PDBParser.cpp:16: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/math/special_functions/math_fwd.hpp:26, from /usr/include/boost/math/special_functions/sign.hpp:17, from /usr/include/boost/lexical_cast/detail/inf_nan.hpp:34, from /usr/include/boost/lexical_cast/detail/converter_lexical_streams.hpp:63, from /usr/include/boost/lexical_cast/detail/converter_lexical.hpp:54, from /usr/include/boost/lexical_cast/try_lexical_convert.hpp:42, from /usr/include/boost/lexical_cast.hpp:32, from /<>/Code/GraphMol/FileParsers/PDBParser.cpp:16: /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::PDBConformerLine(RDKit::RWMol*, const char*, unsigned int, RDKit::Conformer*&, int&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::PDBAtomLine(RDKit::RWMol*, const char*, unsigned int, unsigned int, std::map&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/SequenceParsers.cpp [ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/SequenceWriters.cpp [ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SVGParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FileParsers/SVGParser.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:13: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘virtual RDKit::ROMol* RDKit::MaeMolSupplier::next()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/BadFileException.h:15, from /<>/Code/GraphMol/FileParsers/MaeMolSupplier.cpp:13: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/FileParsers/SequenceParsers.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘RDKit::RWMol* RDKit::FASTAToMol(const char*, bool, int)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/FileParsers/SVGParser.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/FileParsers/SVGParser.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/FileParsers/SVGParser.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDGeom::Point3D&}; _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/FileParsers/SVGParser.cpp:10: /usr/include/c++/9/bits/stl_vector.h: In function ‘RDKit::RWMol* RDKit::RDKitSVGToMol(std::istream*, bool, bool)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 64%] Linking CXX shared library ../../../lib/libRDKitFileParsers.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFileParsers.so.1 -o ../../../lib/libRDKitFileParsers.so.1.2019.03.1 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/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 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1 ../../../lib/libRDKitFileParsers.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target FileParsers make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/depend make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/CoordGen /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/CoordGen /<>/obj-arm-linux-gnueabihf/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField/UFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake --color= make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField/MMFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake --color= Scanning dependencies of target testUFFForceField make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' Scanning dependencies of target testMMFFForceField Scanning dependencies of target testCoordGen make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build Scanning dependencies of target hanoiTest make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Building CXX object Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -c /<>/Code/ForceField/UFF/testUFFForceField.cpp [ 64%] Building CXX object External/CoordGen/CMakeFiles/testCoordGen.dir/test.cpp.o cd /<>/obj-arm-linux-gnueabihf/External/CoordGen && /usr/bin/c++ -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/External/CoordGen/test.cpp [ 64%] Building CXX object Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -c /<>/Code/ForceField/MMFF/testMMFFForceField.cpp [ 64%] Building CXX object Code/GraphMol/CMakeFiles/hanoiTest.dir/hanoitest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/hanoitest.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/new_canon.h:14, from /<>/Code/GraphMol/hanoitest.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/External/CoordGen/test.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/External/CoordGen/test.cpp:13: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/External/CoordGen/test.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/External/CoordGen/test.cpp:13: /usr/include/c++/9/bits/stl_vector.h: In function ‘unsigned int RDKit::CoordGen::addCoords(T&, const RDKit::CoordGen::CoordGenParams*) [with T = RDKit::ROMol]’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/External/CoordGen/test.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, const char*)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, const char*)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 64%] Linking CXX executable testCoordGen cd /<>/obj-arm-linux-gnueabihf/External/CoordGen && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoordGen.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testCoordGen.dir/test.cpp.o -o testCoordGen -lcoordgen -lmaeparser ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target testCoordGen make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake --color= Scanning dependencies of target graphmoltestChirality make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -c /<>/Code/GraphMol/testChirality.cpp [ 64%] Linking CXX executable testUFFForceField cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -o testUFFForceField ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target testUFFForceField make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake --color= Scanning dependencies of target graphmoltestPickler make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -c /<>/Code/GraphMol/testPickler.cpp [ 64%] Linking CXX executable hanoiTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/hanoiTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -o hanoiTest ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target hanoiTest make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolMolOpsTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -c /<>/Code/GraphMol/molopstest.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/testPickler.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/testPickler.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/testPickler.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 64%] Linking CXX executable testMMFFForceField cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -o testMMFFForceField ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.1 ../../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target testMMFFForceField make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolTest1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/test1.cpp /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/molopstest.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/molopstest.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/molopstest.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/test1.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/test1.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/test1.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 64%] Linking CXX executable graphmoltestPickler cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPickler.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -o graphmoltestPickler ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target graphmoltestPickler make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake --color= Scanning dependencies of target graphmoltestPicklerGlobalSetting make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -c /<>/Code/GraphMol/testPicklerGlobalSettings.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/testPicklerGlobalSettings.cpp:33: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 65%] Linking CXX executable graphmoltestChirality cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestChirality.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -o graphmoltestChirality ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex [ 65%] Linking CXX executable graphmolTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmolTest1.dir/test1.cpp.o -o graphmolTest1 ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target graphmoltestChirality make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= Scanning dependencies of target resMolSupplierTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/resMolSupplierTest.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target graphmolTest1 make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake --color= Scanning dependencies of target molBundleTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/testMolBundle.cpp [ 65%] Linking CXX executable graphmoltestPicklerGlobalSetting cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPicklerGlobalSetting.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -o graphmoltestPicklerGlobalSetting ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target graphmoltestPicklerGlobalSetting make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake --color= Scanning dependencies of target testSGroup make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/testSGroup.cpp [ 65%] Linking CXX executable molBundleTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molBundleTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o -o molBundleTest ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target molBundleTest make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolTestsCatch make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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_tests.cpp.o -c /<>/Code/GraphMol/catch_tests.cpp In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/molopstest.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘void testIssue212()’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘void testAddConformers()’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 65%] Linking CXX executable resMolSupplierTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/resMolSupplierTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -o resMolSupplierTest ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target resMolSupplierTest make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake --color= Scanning dependencies of target testDepictor make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/c++ -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/Depictor/testDepictor.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/testSGroup.cpp:14: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘void testAddHsCoords()’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/set:60, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Depictor/testDepictor.cpp:13: /usr/include/c++/9/bits/stl_tree.h: In member function ‘void std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_erase_aux(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator) [with _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2504:5: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2504 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Linking CXX executable testSGroup cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSGroup.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testSGroup.dir/testSGroup.cpp.o -o testSGroup ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target testSGroup make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= Scanning dependencies of target rdDepictor make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap && /usr/bin/c++ -DIN_COORDGEN -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDepictor_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -c /<>/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp /usr/include/c++/9/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:26, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Depictor/testDepictor.cpp:13: /usr/include/c++/9/bits/stl_map.h: In function ‘void testIssue2091304()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In function ‘void testIssue3122141()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In function ‘void testIssue2303566()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In function ‘void testIssue3135833()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In function ‘void test4()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, In file included from /usr/include/c++/9/set:60, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Depictor/testDepictor.cpp:13: /usr/include/c++/9/bits/stl_tree.h:1220:2: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 1220 | _M_erase_aux(__position); | ^~~~~~~~~~~~ /usr/include/c++/9/bits/stl_tree.h:1220:2: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 1220 | _M_erase_aux(__position); | ^~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:26, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Depictor/testDepictor.cpp:13: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, In file included from /usr/include/c++/9/set:60, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Depictor/testDepictor.cpp:13: /usr/include/c++/9/bits/stl_tree.h:1220:2: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 1220 | _M_erase_aux(__position); | ^~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/molopstest.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setPODVal(const string&, T) [with T = int]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 65%] Linking CXX executable testDepictor cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDepictor.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testDepictor.dir/testDepictor.cpp.o -o testDepictor ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target testDepictor make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= Scanning dependencies of target smiTest1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/test.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/SmilesParse/test.cpp In file included from /<>/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp:18: /<>/Code/GraphMol/Depictor/EmbeddedFrag.h: In member function ‘RDDepict::EmbeddedAtom RDDepict::EmbeddedFrag::GetEmbeddedAtom(unsigned int) const’: /<>/Code/GraphMol/Depictor/EmbeddedFrag.h:314:18: warning: implicitly-declared ‘RDDepict::EmbeddedAtom::EmbeddedAtom(const RDDepict::EmbeddedAtom&)’ is deprecated [-Wdeprecated-copy] 314 | return posi->second; | ^~~~~~ /<>/Code/GraphMol/Depictor/EmbeddedFrag.h:59:17: note: because ‘RDDepict::EmbeddedAtom’ has user-provided ‘RDDepict::EmbeddedAtom& RDDepict::EmbeddedAtom::operator=(const RDDepict::EmbeddedAtom&)’ 59 | EmbeddedAtom &operator=(const EmbeddedAtom &other) { | ^~~~~~~~ In file included from /<>/Code/GraphMol/Depictor/RDDepictor.h:16, from /<>/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp:17: /<>/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)’: /<>/Code/Geometry/point.h:289:15: warning: ‘*((void*)(&)+16).RDGeom::Point2D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 289 | x = other.x; | ~~~~~~^ [ 65%] Linking CXX shared module ../../../../rdkit/Chem/rdDepictor.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDepictor.so CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target rdDepictor make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= Scanning dependencies of target smiTestCatch make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/SmilesParse/catch_tests.cpp In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_tests.cpp:3: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_tests.cpp:3: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/SmilesParse/test.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_tests.cpp:3: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_tests.cpp:3: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_tests.cpp:3: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_tests.cpp:3: /usr/include/c++/9/bits/stl_vector.h: In function ‘void ____C_A_T_C_H____T_E_S_T____35()’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/catch_tests.cpp:3: /usr/include/c++/9/bits/vector.tcc: In function ‘void ____C_A_T_C_H____T_E_S_T____7()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 65%] Linking CXX executable graphmolMolOpsTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMolOpsTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -o graphmolMolOpsTest ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target graphmolMolOpsTest make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= Scanning dependencies of target cxsmilesTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/SmilesParse/cxsmiles_test.cpp In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/SmilesParse/catch_tests.cpp:14: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/SmilesParse/catch_tests.cpp:14: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, const char*)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void testBug3525799()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 65%] Linking CXX executable cxsmilesTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -o cxsmilesTest ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target cxsmilesTest make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake --color= Scanning dependencies of target testTplParser make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/FileParsers/testTpls.cpp /<>/Code/GraphMol/FileParsers/testTpls.cpp: In function ‘void test1()’: /<>/Code/GraphMol/FileParsers/testTpls.cpp:43:27: warning: implicitly-declared ‘RDKit::Conformer& RDKit::Conformer::operator=(const RDKit::Conformer&)’ is deprecated [-Wdeprecated-copy] 43 | conf = m->getConformer(0); | ^ In file included from /<>/Code/GraphMol/RDKitBase.h:25, from /<>/Code/GraphMol/FileParsers/testTpls.cpp:13: /<>/Code/GraphMol/Conformer.h:60:3: note: because ‘RDKit::Conformer’ has user-provided ‘RDKit::Conformer::Conformer(const RDKit::Conformer&)’ 60 | Conformer(const Conformer &other); | ^~~~~~~~~ /<>/Code/GraphMol/FileParsers/testTpls.cpp:48:27: warning: implicitly-declared ‘RDKit::Conformer& RDKit::Conformer::operator=(const RDKit::Conformer&)’ is deprecated [-Wdeprecated-copy] 48 | conf = m->getConformer(1); | ^ In file included from /<>/Code/GraphMol/RDKitBase.h:25, from /<>/Code/GraphMol/FileParsers/testTpls.cpp:13: /<>/Code/GraphMol/Conformer.h:60:3: note: because ‘RDKit::Conformer’ has user-provided ‘RDKit::Conformer::Conformer(const RDKit::Conformer&)’ 60 | Conformer(const Conformer &other); | ^~~~~~~~~ /<>/Code/GraphMol/FileParsers/testTpls.cpp:59:27: warning: implicitly-declared ‘RDKit::Conformer& RDKit::Conformer::operator=(const RDKit::Conformer&)’ is deprecated [-Wdeprecated-copy] 59 | conf = m->getConformer(0); | ^ In file included from /<>/Code/GraphMol/RDKitBase.h:25, from /<>/Code/GraphMol/FileParsers/testTpls.cpp:13: /<>/Code/GraphMol/Conformer.h:60:3: note: because ‘RDKit::Conformer’ has user-provided ‘RDKit::Conformer::Conformer(const RDKit::Conformer&)’ 60 | Conformer(const Conformer &other); | ^~~~~~~~~ [ 65%] Linking CXX executable graphmolTestsCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/graphmolTestsCatch.dir/catch_tests.cpp.o -o graphmolTestsCatch ../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../lib/libRDKitDepictor.so.1.2019.03.1 ../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../lib/libRDKitAlignment.so.1.2019.03.1 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../lib/libRDKitForceField.so.1.2019.03.1 ../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target graphmolTestsCatch make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake --color= Scanning dependencies of target fileParsersCatchTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/fileParsersCatchTest.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/FileParsers/catch_tests.cpp [ 66%] Linking CXX executable smiTest1 cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/smiTest1.dir/test.cpp.o -o smiTest1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Built target smiTest1 make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake --color= Scanning dependencies of target testSequence make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/testSequence.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testSequence.dir/testSequence.cpp.o -c /<>/Code/GraphMol/FileParsers/testSequence.cpp [ 66%] Linking CXX executable testTplParser cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testTplParser.dir/testTpls.cpp.o -o testTplParser ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Built target testTplParser make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake --color= Scanning dependencies of target testPropertyLists make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -c /<>/Code/GraphMol/FileParsers/testPropertyLists.cpp [ 66%] Linking CXX executable testSequence cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSequence.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testSequence.dir/testSequence.cpp.o -o testSequence ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Built target testSequence make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake --color= Scanning dependencies of target testMolSupplier make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/FileParsers/testMolSupplier.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/testMolSupplier.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::fpos<__mbstate_t>&}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In function ‘void testGitHub23()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/testMolSupplier.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In function ‘void testSetStreamIndices()’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/FileParsers/catch_tests.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/FileParsers/catch_tests.cpp:13: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 67%] Linking CXX executable smiTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -o smiTestCatch ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/FileParsers/testPropertyLists.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/FileParsers/testPropertyLists.cpp:13: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target smiTestCatch make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake --color= Scanning dependencies of target fileParsersTest1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/FileParsers/test1.cpp [ 67%] Linking CXX executable testMolSupplier cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -o testMolSupplier ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitRDStreams.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake --color= Scanning dependencies of target testMol2ToMol make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/FileParsers/testMol2ToMol.cpp In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/FileParsers/testPropertyLists.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 67%] Linking CXX executable testMol2ToMol cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -o testMol2ToMol ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testMol2ToMol make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= Scanning dependencies of target testExtendedStereoParsing make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/FileParsers/testExtendedStereoParsing.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/test1.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/test1.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/test1.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/test1.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In function ‘void testIssue2963522()’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 67%] Linking CXX executable testExtendedStereoParsing cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -o testExtendedStereoParsing ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testExtendedStereoParsing make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake --color= Scanning dependencies of target testMolWriter make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -c /<>/Code/GraphMol/FileParsers/testMolWriter.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/testMolWriter.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/testMolWriter.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/testMolWriter.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 67%] Linking CXX executable fileParsersCatchTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/fileParsersCatchTest.dir/catch_tests.cpp.o -o fileParsersCatchTest ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target fileParsersCatchTest make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake --color= Scanning dependencies of target testSubstructMatch make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/Substruct/test1.cpp In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FileParsers/testMolWriter.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘void testIssue265()’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Substruct/test1.cpp:17: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 [ 67%] Linking CXX executable testMolWriter cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -o testMolWriter ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testMolWriter make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake --color= Scanning dependencies of target substructTestCatch make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/Substruct/catch_tests.cpp [ 67%] Linking CXX executable testPropertyLists cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -o testPropertyLists ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testPropertyLists make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake --color= Scanning dependencies of target Descriptors make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Crippen.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Descriptors/Crippen.cpp /usr/include/c++/9/bits/vector.tcc: In function ‘void test5QueryRoot()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 68%] Linking CXX executable testSubstructMatch cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testSubstructMatch.dir/test1.cpp.o -o testSubstructMatch ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target testSubstructMatch make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target testChemTransforms make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -c /<>/Code/GraphMol/ChemTransforms/testChemTransforms.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/Descriptors/Crippen.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDKit::Descriptors::CrippenParams&}; _Tp = RDKit::Descriptors::CrippenParams; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/Descriptors/Crippen.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Descriptors::CrippenParamCollection::CrippenParamCollection(const string&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MolDescriptors.cpp.o -c /<>/Code/GraphMol/Descriptors/MolDescriptors.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ChemTransforms/testChemTransforms.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolSurf.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Descriptors/MolSurf.cpp In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/Substruct/catch_tests.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/Substruct/catch_tests.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Descriptors/MolSurf.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, const char*)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 68%] Linking CXX executable fileParsersTest1 cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/fileParsersTest1.dir/test1.cpp.o -o fileParsersTest1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target fileParsersTest1 make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake --color= Scanning dependencies of target filterCatalogTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -c /<>/Code/GraphMol/FilterCatalog/filtercatalogtest.cpp [ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Lipinski.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Descriptors/Lipinski.cpp [ 68%] Linking CXX executable testChemTransforms cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -o testChemTransforms ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target testChemTransforms make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FilterCatalog/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake --color= Scanning dependencies of target rdfiltercatalog make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/FilterCatalog/filtercatalogtest.cpp:33: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, const char*)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void testFilterCatalogEntry()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 68%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp [ 68%] Linking CXX executable filterCatalogTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -o filterCatalogTest ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 68%] Built target filterCatalogTest make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target testFragCatalog make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testFragCatalog.dir/test1.cpp.o -c /<>/Code/GraphMol/FragCatalog/test1.cpp [ 69%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o -c /<>/Code/GraphMol/Descriptors/ConnectivityDescriptors.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/graph/adjacency_list.hpp:17, from /<>/Code/GraphMol/ROMol.h:27, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/Descriptors/ConnectivityDescriptors.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 69%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MQN.cpp.o -c /<>/Code/GraphMol/Descriptors/MQN.cpp [ 69%] Linking CXX executable testFragCatalog cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testFragCatalog.dir/test1.cpp.o -o testFragCatalog ../../../lib/libRDKitFragCatalog.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Built target testFragCatalog make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FragCatalog/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake --color= Scanning dependencies of target rdfragcatalog make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/Wrap/rdfragcatalog.cpp [ 70%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Property.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Descriptors/Property.cpp [ 70%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Descriptors/Property.h:36, from /<>/Code/GraphMol/Descriptors/Property.cpp:32: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 70%] Linking CXX executable substructTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -o substructTestCatch ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/include/c++/9/bits/vector.tcc: In member function ‘std::vector RDKit::Descriptors::Properties::computeProperties(const RDKit::ROMol&, bool) const’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 70%] Built target substructTestCatch make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= Scanning dependencies of target testFingerprintGenerators make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp [ 70%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Descriptors/AUTOCORR2D.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp:31: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 70%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Descriptors/Data3Ddescriptors.cpp [ 70%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Descriptors/MolData3Ddescriptors.cpp In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/call_traits.hpp:15, from /usr/include/boost/iostreams/detail/adapter/device_adapter.hpp:22, from /usr/include/boost/iostreams/tee.hpp:18, from /<>/Code/RDGeneral/RDLog.h:17, from /<>/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp:11: /usr/include/c++/9/bits/stl_algo.h: In function ‘_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’: /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 112 | __find_if(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::FilterCatalogEntry::setProp(const string&, T) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h: In function ‘void testAtomPairOutput()’: /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 70%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp [ 70%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Descriptors/USRDescriptor.cpp [ 70%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.cpp In file included from /usr/include/c++/9/set:60, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp:12: /usr/include/c++/9/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = long long unsigned int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:26, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp:12: /usr/include/c++/9/bits/stl_map.h: In function ‘void testRDKitFP()’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In function ‘void testTopologicalTorsionFPOld()’: /usr/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 499 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, [ 70%] Linking CXX shared library ../../../lib/libRDKitDescriptors.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDescriptors.so.1 -o ../../../lib/libRDKitDescriptors.so.1.2019.03.1 CMakeFiles/Descriptors.dir/Crippen.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 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1 ../../../lib/libRDKitDescriptors.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Built target Descriptors make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake --color= Scanning dependencies of target testFingerprints make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 70%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testFingerprints.dir/test1.cpp.o -c /<>/Code/GraphMol/Fingerprints/test1.cpp [ 71%] Linking CXX shared module ../../../../rdkit/Chem/rdfiltercatalog.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 71%] Linking CXX executable testFingerprintGenerators cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -o testFingerprintGenerators ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 71%] Built target rdfiltercatalog make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target testMolTransforms make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 71%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLTRANSFORMS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolTransforms/test1.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 71%] 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 '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/MMFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target testMMFFForceFieldHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 72%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFHelpers.cpp [ 72%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolTransforms/test1.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolTransforms/test1.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘void test1Canonicalization()’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFHelpers.cpp:15: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFHelpers.cpp:15: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 73%] Linking CXX executable testMolTransforms cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMolTransforms.dir/test1.cpp.o -o testMolTransforms ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Built target testMolTransforms make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/UFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target testUFFForceFieldHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Building CXX object Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/Fingerprints/test1.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 [ 73%] Linking CXX shared module ../../../../rdkit/Chem/rdfragcatalog.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 73%] 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 '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake --color= Scanning dependencies of target testCrystalForceField make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Building CXX object Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalFF.cpp [ 73%] Linking CXX executable testMMFFForceFieldHelpers cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -o testMMFFForceFieldHelpers ../../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.1 ../../../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Built target testMMFFForceFieldHelpers make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target testDistGeomHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp:15: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp:15: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 73%] Linking CXX executable testCrystalForceField cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -o testCrystalForceField ../../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.1 ../../../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 73%] 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 '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= Scanning dependencies of target rdDistGeom make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Building CXX object Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/c++ -DBOOST_PYTHON_MAX_ARITY=32 -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDistGeom_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ [ 73%] Linking CXX executable testUFFForceFieldHelpers cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -o testUFFForceFieldHelpers ../../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.1 ../../../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Built target testUFFForceFieldHelpers make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake --color= Scanning dependencies of target testMolAlign make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolAlign/testMolAlign.cpp /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::RDProps::clearProp(const string&) const’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:60, from /usr/include/boost/detail/container_fwd.hpp:94, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:10: /usr/include/c++/9/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/Conformer.h:14, from /<>/Code/GraphMol/ROMol.h:36, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:17: /<>/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)’: /<>/Code/Geometry/point.h:85:15: warning: ‘*((void*)(&)+16).RDGeom::Point3D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 85 | x = other.x; | ~~~~~~^ In file included from /usr/include/c++/9/map:61, from /usr/include/boost/detail/container_fwd.hpp:94, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:10: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, In file included from /<>/Code/GraphMol/Conformer.h:14, from /<>/Code/GraphMol/ROMol.h:36, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:17: /<>/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)’: /<>/Code/Geometry/point.h:85:15: warning: ‘*((void*)(&)+16).RDGeom::Point3D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 85 | x = other.x; | ~~~~~~^ In file included from /usr/include/c++/9/map:61, from /usr/include/boost/detail/container_fwd.hpp:94, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:10: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, [ 74%] Linking CXX shared module ../../../../rdkit/Chem/rdDistGeom.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDistGeom.so CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o ../../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.1 ../../../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Built target rdDistGeom make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolAlign make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Building CXX object Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolAlign_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp In file included from /usr/include/c++/9/set:60, from /<>/Code/Query/SetQuery.h:13, from /<>/Code/Query/QueryObjects.h:29, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:13: /usr/include/c++/9/bits/stl_tree.h: In function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/GraphMol/Atom.h:26, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:13: /usr/include/c++/9/bits/stl_map.h: In member function ‘std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](std::map<_Key, _Tp, _Compare, _Alloc>::key_type&&) [with _Key = int; _Tp = RDGeom::Point3D; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In function ‘void testGithub2246()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/Numerics/Vector.h:15, from /<>/Code/Numerics/Matrix.h:15, from /<>/Code/Numerics/SquareMatrix.h:14, from /<>/Code/Geometry/Transform3D.h:16, from /<>/Code/GraphMol/MolAlign/AlignMolecules.h:14, from /<>/Code/GraphMol/MolAlign/testMolAlign.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_map.h: In function ‘void testConstrainedEmbedding()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h: In function ‘void testGithub55()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp:13: /usr/include/c++/9/bits/vector.tcc: In function ‘void testGithub568()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 74%] Linking CXX executable testMolAlign cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -o testMolAlign ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.1 ../../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Built target testMolAlign make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target testFeatures make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/testFeatures.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp [ 74%] Linking CXX executable testDistGeomHelpers cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -o testDistGeomHelpers ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.1 ../../../lib/libRDKitDistGeometry.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Built target testDistGeomHelpers make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target testShapeHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/ShapeHelpers/testShapeHelpers.cpp /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp: In function ‘RDKit::MolAlign::PyO3A* RDKit::MolAlign::getCrippenO3A(RDKit::ROMol&, RDKit::ROMol&, boost::python::list, boost::python::list, int, int, bool, unsigned int, unsigned int, boost::python::list, boost::python::list)’: /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:451:40: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 451 | (python::len(prbCrippenContribs) == prbNAtoms)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:466:40: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 466 | (python::len(refCrippenContribs) == refNAtoms)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp: In function ‘boost::python::tuple RDKit::MolAlign::getCrippenO3AForConfs(RDKit::ROMol&, RDKit::ROMol&, int, boost::python::list, boost::python::list, int, bool, unsigned int, unsigned int, boost::python::list, boost::python::list)’: /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:532:40: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 532 | (python::len(prbCrippenContribs) == prbNAtoms)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:547:40: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 547 | (python::len(refCrippenContribs) == refNAtoms)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 74%] Linking CXX executable testFingerprints cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testFingerprints.dir/test1.cpp.o -o testFingerprints ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Built target testFingerprints make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target testMolCatalog make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolCatalog/test1.cpp [ 74%] Linking CXX executable testShapeHelpers cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -o testShapeHelpers ../../../lib/libRDKitShapeHelpers.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' In file included from /<>/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:24: /<>/Code/RDBoost/PySequenceHolder.h: In function ‘RDNumeric::DoubleVector* RDKit::_translateWeights(boost::python::api::object)’: /<>/Code/RDBoost/PySequenceHolder.h:68:9: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ [ 74%] Built target testShapeHelpers make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolCatalog/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolCatalog make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Building CXX object Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolCatalog_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:16: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp:16: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘void test6()’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In function ‘void testGithub2077()’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ [ 75%] Linking CXX executable testMolCatalog cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMolCatalog.dir/test1.cpp.o -o testMolCatalog ../../../lib/libRDKitMolCatalog.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Built target testMolCatalog make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake --color= Scanning dependencies of target FMCS make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/FMCS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FMCS.cpp.o -c /<>/Code/GraphMol/FMCS/FMCS.cpp [ 75%] Linking CXX executable testFeatures cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testFeatures.dir/testFeatures.cpp.o -o testFeatures ../../../lib/libRDKitMolChemicalFeatures.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex [ 75%] Linking CXX shared module ../../../../rdkit/Chem/rdMolAlign.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolAlign.dir/link.txt --verbose=1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolAlign.so CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o ../../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 75%] Built target testFeatures make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake --color= Scanning dependencies of target MolHash make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/MolHash.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/c++ -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MolHash.cpp.o -c /<>/Code/GraphMol/MolHash/MolHash.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Built target rdMolAlign make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake --color= Scanning dependencies of target MMPA make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA && /usr/bin/c++ -DMMPA_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MMPA_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MMPA.dir/MMPA.cpp.o -c /<>/Code/GraphMol/MMPA/MMPA.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/MMPA/MMPA.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 75%] Linking CXX shared module ../../../../rdkit/Chem/rdMolCatalog.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolCatalog.so CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o ../../../../lib/libRDKitMolCatalog.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Built target rdMolCatalog make -f Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/StructChecker /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/DependInfo.cmake --color= Scanning dependencies of target StructChecker make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/StructChecker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/StructChecker.cpp.o -c /<>/Code/GraphMol/StructChecker/StructChecker.cpp [ 75%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/HashToString.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/c++ -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/HashToString.cpp.o -c /<>/Code/GraphMol/MolHash/HashToString.cpp [ 75%] Linking CXX shared library ../../../lib/libRDKitMMPA.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMMPA.so.1 -o ../../../lib/libRDKitMMPA.so.1.2019.03.1 CMakeFiles/MMPA.dir/MMPA.cpp.o ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 76%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/Seed.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FMCS/Seed.cpp cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMMPA.so.1.2019.03.1 ../../../lib/libRDKitMMPA.so.1 ../../../lib/libRDKitMMPA.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 76%] Built target MMPA make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake --color= Scanning dependencies of target trajectoryTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 76%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_TRAJECTORY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/Trajectory/trajectoryTest.cpp [ 76%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/StructCheckerOptions.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/StructCheckerOptions.cpp.o -c /<>/Code/GraphMol/StructChecker/StructCheckerOptions.cpp [ 76%] Linking CXX shared library ../../../lib/libRDKitMolHash.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolHash.so.1 -o ../../../lib/libRDKitMolHash.so.1.2019.03.1 CMakeFiles/MolHash.dir/MolHash.cpp.o CMakeFiles/MolHash.dir/HashToString.cpp.o ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolHash.so.1.2019.03.1 ../../../lib/libRDKitMolHash.so.1 ../../../lib/libRDKitMolHash.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 76%] Built target MolHash make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/DependInfo.cmake --color= Scanning dependencies of target substructLibraryTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 76%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/SubstructLibrary/substructLibraryTest.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/Trajectory/Trajectory.h:14, from /<>/Code/GraphMol/Trajectory/trajectoryTest.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void testAddConformersFromTrajectory()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 76%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FMCS/MaximumCommonSubgraph.cpp [ 77%] Linking CXX executable trajectoryTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -o trajectoryTest ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target trajectoryTest [ 77%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o -c /<>/Code/GraphMol/FMCS/SubstructMatchCustom.cpp [ 77%] Linking CXX executable substructLibraryTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -o substructLibraryTest ../../../lib/libRDKitSubstructLibrary.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 77%] Built target substructLibraryTest make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake --color= Scanning dependencies of target rdSubstructLibrary make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 78%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp [ 79%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/StructureFlags.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/StructureFlags.cpp.o -c /<>/Code/GraphMol/StructChecker/StructureFlags.cpp [ 79%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp [ 79%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/Utilites.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/Utilites.cpp.o -c /<>/Code/GraphMol/StructChecker/Utilites.cpp [ 79%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/Pattern.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/Pattern.cpp.o -c /<>/Code/GraphMol/StructChecker/Pattern.cpp [ 79%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/Stereo.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/Stereo.cpp.o -c /<>/Code/GraphMol/StructChecker/Stereo.cpp [ 79%] Linking CXX shared library ../../../lib/libRDKitFMCS.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFMCS.so.1 -o ../../../lib/libRDKitFMCS.so.1.2019.03.1 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.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFMCS.so.1.2019.03.1 ../../../lib/libRDKitFMCS.so.1 ../../../lib/libRDKitFMCS.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 79%] Built target FMCS make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake --color= Scanning dependencies of target molInterchangeTest1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 79%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/rapidjson -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolInterchange/test1.cpp [ 79%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/AtomSymbolMatch.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/AtomSymbolMatch.cpp.o -c /<>/Code/GraphMol/StructChecker/AtomSymbolMatch.cpp [ 79%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/StripSmallFragments.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/StripSmallFragments.cpp.o -c /<>/Code/GraphMol/StructChecker/StripSmallFragments.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolInterchange/test1.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 79%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/ReCharge.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/ReCharge.cpp.o -c /<>/Code/GraphMol/StructChecker/ReCharge.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/StructChecker/../MolOps.h:15, from /<>/Code/GraphMol/StructChecker/StripSmallFragments.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 79%] Linking CXX executable molInterchangeTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/molInterchangeTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molInterchangeTest1.dir/test1.cpp.o -o molInterchangeTest1 ../../../lib/libRDKitMolInterchange.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 79%] Built target molInterchangeTest1 make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake --color= Scanning dependencies of target rdmolfiles make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 80%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/rdmolfiles.cpp [ 80%] Linking CXX shared module ../../../../rdkit/Chem/rdSubstructLibrary.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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.1.2019.03.1 ../../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 81%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/Tautomer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/Tautomer.cpp.o -c /<>/Code/GraphMol/StructChecker/Tautomer.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 81%] Built target rdSubstructLibrary make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= Scanning dependencies of target ChemReactions make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 82%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Reaction.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/Reaction.cpp [ 82%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MDLParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/MDLParser.cpp [ 82%] Linking CXX shared library ../../../lib/libRDKitStructChecker.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/cmake -E cmake_link_script CMakeFiles/StructChecker.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitStructChecker.so.1 -o ../../../lib/libRDKitStructChecker.so.1.2019.03.1 CMakeFiles/StructChecker.dir/StructChecker.cpp.o CMakeFiles/StructChecker.dir/StructCheckerOptions.cpp.o CMakeFiles/StructChecker.dir/StructureFlags.cpp.o CMakeFiles/StructChecker.dir/Utilites.cpp.o CMakeFiles/StructChecker.dir/Pattern.cpp.o CMakeFiles/StructChecker.dir/Stereo.cpp.o CMakeFiles/StructChecker.dir/AtomSymbolMatch.cpp.o CMakeFiles/StructChecker.dir/StripSmallFragments.cpp.o CMakeFiles/StructChecker.dir/ReCharge.cpp.o CMakeFiles/StructChecker.dir/Tautomer.cpp.o ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitStructChecker.so.1.2019.03.1 ../../../lib/libRDKitStructChecker.so.1 ../../../lib/libRDKitStructChecker.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 82%] Built target StructChecker make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake --color= Scanning dependencies of target testDescriptors make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 82%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/test.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDescriptors.dir/test.cpp.o -c /<>/Code/GraphMol/Descriptors/test.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/ChemReactions/Reaction.h:37, from /<>/Code/GraphMol/ChemReactions/Reaction.cpp:33: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 82%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/DaylightParser.cpp [ 82%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/ReactionPickler.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/rdmolfiles.cpp:13: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/MolPickler.h:19, from /<>/Code/GraphMol/ChemReactions/ReactionPickler.cpp:13: /<>/Code/RDGeneral/StreamOps.h: In function ‘bool RDKit::isSerializable(const RDKit::Dict::Pair&, const CustomPropHandlerVec&)’: /<>/Code/RDGeneral/StreamOps.h:353:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 353 | } | ^ /<>/Code/RDGeneral/StreamOps.h:354:5: note: here 354 | default: | ^~~~~~~ [ 82%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o -c /<>/Code/GraphMol/ChemReactions/ReactionWriter.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function.hpp:30, from /usr/include/boost/algorithm/string/detail/find_iterator.hpp:18, from /usr/include/boost/algorithm/string/find_iterator.hpp:24, from /usr/include/boost/algorithm/string/iter_find.hpp:27, from /usr/include/boost/algorithm/string/split.hpp:16, from /usr/include/boost/algorithm/string.hpp:23, from /<>/Code/GraphMol/Descriptors/test.cpp:16: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 [ 82%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/ReactionDepict.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/ChemReactions/Reaction.h:37, from /<>/Code/GraphMol/ChemReactions/ReactionWriter.cpp:33: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void {anonymous}::setRXNRoleOfAllMoleculeAtoms(RDKit::ROMol&, int)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 83%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp [ 83%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/ReactionUtils.cpp In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function.hpp:30, from /usr/include/boost/algorithm/string/detail/find_iterator.hpp:18, from /usr/include/boost/algorithm/string/find_iterator.hpp:24, from /usr/include/boost/algorithm/string/iter_find.hpp:27, from /usr/include/boost/algorithm/string/split.hpp:16, from /usr/include/boost/algorithm/string.hpp:23, from /<>/Code/GraphMol/Descriptors/test.cpp:16: /usr/include/c++/9/bits/stl_vector.h: In function ‘void testProperties()’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp: In function ‘RDKit::SparseIntVect* RDKit::DifferenceFingerprintChemReaction(const RDKit::ChemicalReaction&, const RDKit::ReactionFingerprintParams&)’: /<>/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp:221:42: warning: implicitly-declared ‘RDKit::SparseIntVect& RDKit::SparseIntVect::operator=(const RDKit::SparseIntVect&)’ is deprecated [-Wdeprecated-copy] 221 | (*res) = *productFP - *reactantFP + *agentFP; | ^~~~~~~ In file included from /<>/Code/GraphMol/Fingerprints/Fingerprints.h:16, from /<>/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp:37: /<>/Code/DataStructs/SparseIntVect.h:38:3: note: because ‘RDKit::SparseIntVect’ has user-provided ‘RDKit::SparseIntVect::SparseIntVect(const RDKit::SparseIntVect&) [with IndexType = unsigned int]’ 38 | SparseIntVect(const SparseIntVect &other) { | ^~~~~~~~~~~~~ /<>/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp:226:28: warning: implicitly-declared ‘RDKit::SparseIntVect& RDKit::SparseIntVect::operator=(const RDKit::SparseIntVect&)’ is deprecated [-Wdeprecated-copy] 226 | (*res) = *productFP - *reactantFP; | ^~~~~~~~~~ In file included from /<>/Code/GraphMol/Fingerprints/Fingerprints.h:16, from /<>/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp:37: /<>/Code/DataStructs/SparseIntVect.h:38:3: note: because ‘RDKit::SparseIntVect’ has user-provided ‘RDKit::SparseIntVect::SparseIntVect(const RDKit::SparseIntVect&) [with IndexType = unsigned int]’ 38 | SparseIntVect(const SparseIntVect &other) { | ^~~~~~~~~~~~~ [ 83%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp [ 83%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/MoleculeParser.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/ChemReactions/Reaction.h:37, from /<>/Code/GraphMol/ChemReactions/ReactionUtils.cpp:34: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 83%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/ReactionRunner.cpp [ 83%] Linking CXX executable testDescriptors cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testDescriptors.dir/test.cpp.o -o testDescriptors ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 83%] Built target testDescriptors make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= Scanning dependencies of target testAUTOCORR2D make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 84%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/c++ -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -c /<>/Code/GraphMol/Descriptors/testAUTOCORR2D.cpp [ 84%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/PreprocessRxn.cpp [ 84%] Linking CXX executable testAUTOCORR2D cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR2D.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -o testAUTOCORR2D ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 84%] Built target testAUTOCORR2D make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolDescriptors make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 84%] Building CXX object Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolDescriptors_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o -c /<>/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp In file included from /<>/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:22: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:336:16: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 336 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/ChemReactions/Reaction.h:37, from /<>/Code/GraphMol/ChemReactions/ReactionRunner.cpp:33: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/ChemReactions/Reaction.h:37, from /<>/Code/GraphMol/ChemReactions/ReactionRunner.cpp:33: /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::ReactionRunnerUtils::generateProductConformers(RDKit::Conformer*, const RDKit::ROMol&, RDKit::ReactionRunnerUtils::ReactantProductAtomMapping*)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/ChemReactions/Reaction.h:37, from /<>/Code/GraphMol/ChemReactions/ReactionRunner.cpp:33: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 84%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/SanitizeRxn.cpp [ 84%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/MaeMolSupplier.cpp [ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/ChemReactions/Reaction.h:37, from /<>/Code/GraphMol/ChemReactions/SanitizeRxn.h:36, from /<>/Code/GraphMol/ChemReactions/SanitizeRxn.cpp:32: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.cpp In file included from /<>/Code/GraphMol/Wrap/MaeMolSupplier.cpp:21: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:336:16: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 336 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 85%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/SDMolSupplier.cpp [ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.cpp In file included from /<>/Code/GraphMol/Conformer.h:14, from /<>/Code/GraphMol/ROMol.h:36, from /<>/Code/GraphMol/GraphMol.h:19, from /<>/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: /<>/Code/Geometry/point.h: In function ‘boost::python::list {anonymous}::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)’: /<>/Code/Geometry/point.h:85:15: warning: ‘*((void*)(&)+16).RDGeom::Point3D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 85 | x = other.x; | ~~~~~~^ /<>/Code/Geometry/point.h:86:15: warning: ‘*((void*)(&)+16).RDGeom::Point3D::y’ may be used uninitialized in this function [-Wmaybe-uninitialized] 86 | y = other.y; | ~~~~~~^ /<>/Code/Geometry/point.h:87:15: warning: ‘*((void*)(&)+16).RDGeom::Point3D::z’ may be used uninitialized in this function [-Wmaybe-uninitialized] 87 | z = other.z; | ~~~~~~^ /<>/Code/Geometry/point.h: In function ‘boost::python::list {anonymous}::GetUSRDistributions(boost::python::api::object, boost::python::api::object)’: /<>/Code/Geometry/point.h:85:15: warning: ‘*((void*)(&)+16).RDGeom::Point3D::x’ may be used uninitialized in this function [-Wmaybe-uninitialized] 85 | x = other.x; | ~~~~~~^ /<>/Code/Geometry/point.h:86:15: warning: ‘*((void*)(&)+16).RDGeom::Point3D::y’ may be used uninitialized in this function [-Wmaybe-uninitialized] 86 | y = other.y; | ~~~~~~^ /<>/Code/Geometry/point.h:87:15: warning: ‘*((void*)(&)+16).RDGeom::Point3D::z’ may be used uninitialized in this function [-Wmaybe-uninitialized] 87 | z = other.z; | ~~~~~~^ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/RDBoost/python.h:3, from /<>/Code/GraphMol/Wrap/SDMolSupplier.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::fpos<__mbstate_t>}; _Tp = std::fpos<__mbstate_t>; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector >::iterator’ {aka ‘__gnu_cxx::__normal_iterator*, std::vector > >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void RDKit::setStreamIndices(RDKit::SDMolSupplier&, boost::python::api::object)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 85%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/TDTMolSupplier.cpp [ 85%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/SmilesMolSupplier.cpp [ 85%] Linking CXX shared library ../../../lib/libRDKitChemReactions.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemReactions.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitChemReactions.so.1 -o ../../../lib/libRDKitChemReactions.so.1.2019.03.1 CMakeFiles/ChemReactions.dir/Reaction.cpp.o CMakeFiles/ChemReactions.dir/MDLParser.cpp.o CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1 ../../../lib/libRDKitChemReactions.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 85%] Built target ChemReactions make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake --color= Scanning dependencies of target testFMCS make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 85%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/FMCS/testFMCS_Unit.cpp [ 86%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/SmilesWriter.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/FMCS/testFMCS_Unit.cpp:48: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 86%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/SDWriter.cpp [ 86%] Linking CXX executable testFMCS cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -o testFMCS ../../../lib/libRDKitFMCS.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdMolDescriptors.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolDescriptors.so CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o ../../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread [ 86%] Built target testFMCS make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= Scanning dependencies of target rdFMCS make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFMCS_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target rdMolDescriptors make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS/Test /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= Scanning dependencies of target FMCStest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp In file included from /<>/Code/GraphMol/Wrap/SmilesWriter.cpp:20: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:336:16: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 336 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/Code/GraphMol/Wrap/SDWriter.cpp:21: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:336:16: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 336 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp: In function ‘std::string testChEMBL_Txt(const char*, double, const char*)’: /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:501:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 501 | fprintf(fres, "%s;%lu;%.1f;%.4f;%u;%u;%s;", test, mols.size(), th, sec, | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp: In function ‘void testFileSDF_RandomSet_SMI(const char*, const char*)’: /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1173:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1173 | fprintf(fcsv, "%u;%lu;%s;%.3f;%u;%u;%s;", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1185:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1185 | fprintf(fcsv, "%u;%lu;%s;%.3f;%u;%u;%s\n", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp: In function ‘void testFileSDF_RandomSet(const char*, const char*)’: /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1287:29: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1287 | fprintf(fcsv, "%u;%lu;%s;%.5f;%u;%u;%s;", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1336:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1336 | fprintf(fcsv, "%u;%lu;%s;%.5f;%u;%u;%s;", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:1416:29: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wformat=] 1416 | fprintf(fcsv, "%u;%lu;%s;%.5f;%u;%u;%s;", n, mols.size(), | ~~^ ~~~~~~~~~~~ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u [ 86%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/TDTWriter.cpp [ 86%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/PDBWriter.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/FMCS/Test/../../RDKitBase.h:23, from /<>/Code/GraphMol/FMCS/Test/testFMCS.cpp:48: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘void test504()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 86%] Linking CXX executable FMCStest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/FMCStest.dir/testFMCS.cpp.o -o FMCStest ../../../../lib/libRDKitFMCS.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target FMCStest make -f Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/DependInfo.cmake --color= Scanning dependencies of target testMolHash make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/testMolHash.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolHash.dir/testMolHash.cpp.o -c /<>/Code/GraphMol/MolHash/testMolHash.cpp In file included from /<>/Code/GraphMol/Wrap/PDBWriter.cpp:20: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ [ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdFMCS.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdFMCS.so CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o ../../../../lib/libRDKitFMCS.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:336:16: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 336 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target rdFMCS make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolHash/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolHash make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolHash_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp In file included from /<>/Code/GraphMol/Wrap/TDTWriter.cpp:21: /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:336:16: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 336 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= Scanning dependencies of target testMMPA make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MMPA_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MMPA/MMPA_UnitTest.cpp [ 86%] Linking CXX shared module ../../../rdkit/Chem/rdmolfiles.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target rdmolfiles make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MMPA/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= Scanning dependencies of target rdMMPA make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMMPA_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp [ 86%] Linking CXX executable testMolHash cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolHash.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMolHash.dir/testMolHash.cpp.o -o testMolHash ../../../lib/libRDKitMolHash.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target testMolHash make -f Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/StructChecker /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/DependInfo.cmake --color= Scanning dependencies of target testStructChecker make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/testStructChecker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testStructChecker.dir/testStructChecker.cpp.o -c /<>/Code/GraphMol/StructChecker/testStructChecker.cpp [ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdMolHash.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolHash.so CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o ../../../../lib/libRDKitMolHash.so.1.2019.03.1 ../../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target rdMolHash make -f Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build.make Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/StructChecker/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/DependInfo.cmake --color= Scanning dependencies of target rdStructChecker make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build.make Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/structchecker.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdStructChecker_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdStructChecker.dir/structchecker.cpp.o -c /<>/Code/GraphMol/StructChecker/Wrap/structchecker.cpp [ 86%] Linking CXX executable testMMPA cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -o testMMPA ../../../lib/libRDKitMMPA.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target testMMPA make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake --color= Scanning dependencies of target RGroupDecomposition make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.cpp [ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdMMPA.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMMPA.so CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o ../../../../lib/libRDKitMMPA.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target rdMMPA make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake --color= Scanning dependencies of target MolStandardize make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/MolStandardize.cpp [ 86%] Linking CXX executable testStructChecker cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker && /usr/bin/cmake -E cmake_link_script CMakeFiles/testStructChecker.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testStructChecker.dir/testStructChecker.cpp.o -o testStructChecker ../../../lib/libRDKitStructChecker.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target testStructChecker make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake --color= Scanning dependencies of target testEnumeration make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/ChemReactions/Enumerate/testEnumerate.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RGroupDecomposition/../RDKitBase.h:23, from /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h:14, from /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.cpp:31: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdStructChecker.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdStructChecker.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdStructChecker.so CMakeFiles/rdStructChecker.dir/structchecker.cpp.o ../../../../lib/libRDKitStructChecker.so.1.2019.03.1 ../../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target rdStructChecker make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake --color= Scanning dependencies of target rxnTestCatch make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/ChemReactions/catch_tests.cpp [ 86%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Metal.cpp [ 86%] Linking CXX shared library ../../../lib/libRDKitRGroupDecomposition.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRGroupDecomposition.so.1 -o ../../../lib/libRDKitRGroupDecomposition.so.1.2019.03.1 CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o ../../../lib/libRDKitFMCS.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitRGroupDecomposition.so.1.2019.03.1 ../../../lib/libRDKitRGroupDecomposition.so.1 ../../../lib/libRDKitRGroupDecomposition.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target RGroupDecomposition make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake --color= Scanning dependencies of target testReactionFingerprints make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/ChemReactions/testReactionFingerprints.cpp [ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Normalize.cpp.o -c /<>/Code/GraphMol/MolStandardize/Normalize.cpp [ 88%] Linking CXX executable testEnumeration cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testEnumeration.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -o testEnumeration ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 88%] Built target testEnumeration make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake --color= Scanning dependencies of target testReaction make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 88%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/testReaction.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/ChemReactions/testReaction.cpp [ 88%] Linking CXX executable testReactionFingerprints cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReactionFingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -o testReactionFingerprints ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 88%] Built target testReactionFingerprints make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake --color= Scanning dependencies of target rdChemReactions make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 88%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemReactions_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp [ 88%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Validate.cpp In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/ChemReactions/catch_tests.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/ChemReactions/catch_tests.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ChemReactions/testReaction.cpp:34: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ChemReactions/testReaction.cpp:34: /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::Conformer::setAtomPos(unsigned int, const RDGeom::Point3D&)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/ChemReactions/testReaction.cpp:34: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 88%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Charge.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Charge.cpp [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Tautomer.cpp In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/stl_vector.h: In function ‘void boost::python::container_utils::extend_container(Container&, boost::python::api::object) [with Container = std::vector]’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In static member function ‘static void boost::python::vector_indexing_suite::base_append(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:184:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 184 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:184:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/stl_vector.h: In static member function ‘static void boost::python::indexing_suite::base_delete_item(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = long long unsigned int; Index = unsigned int; Key = long long unsigned int]’: /usr/include/c++/9/bits/stl_vector.h:1458:71: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1458 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ^ In file included from /usr/include/c++/9/algorithm:62, from /usr/include/boost/function/detail/prologue.hpp:13, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/stl_algo.h: In function ‘_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_equals_val]’: /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 112 | __find_if(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h:112:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_algo.h: In static member function ‘static bool boost::python::indexing_suite::base_contains(Container&, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; bool NoProxy = false; bool NoSlice = false; Data = long long unsigned int; Index = unsigned int; Key = long long unsigned int]’: /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_algo.h:161:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | return __find_if(__first, __last, __pred, | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 162 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_range_insert(std::vector<_Tp, _Alloc>::iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 721 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc:721:7: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/stl_vector.h: In static member function ‘static void boost::python::vector_indexing_suite::base_extend(Container&, boost::python::api::object) [with Container = std::vector; bool NoProxy = false; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>]’: /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 1662 | _M_range_insert(__pos, __first, __last, | ^~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_vector.h: In static member function ‘static void boost::python::detail::slice_helper::base_set_slice(Container&, PySliceObject*, PyObject*) [with Container = std::vector; DerivedPolicies = boost::python::detail::final_vector_derived_policies, false>; ProxyHandler = boost::python::detail::no_proxy_helper, boost::python::detail::final_vector_derived_policies, false>, boost::python::detail::container_element, unsigned int, boost::python::detail::final_vector_derived_policies, false> >, unsigned int>; Data = long long unsigned int; Index = unsigned int]’: /usr/include/c++/9/bits/stl_vector.h:1458:71: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1458 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ^ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/vector.tcc:161:2: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/stl_vector.h:1458:71: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1458 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ^ In file included from /usr/include/c++/9/vector:72, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/vector.tcc:161:2: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /usr/include/boost/detail/container_fwd.hpp:93, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:760, from /usr/include/boost/type_index/stl_type_index.hpp:43, from /usr/include/boost/type_index.hpp:29, from /usr/include/boost/function/function_base.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:17, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 1662 | _M_range_insert(__pos, __first, __last, | ^~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/9/bits/stl_vector.h:1458:71: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1458 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ^ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 1662 | _M_range_insert(__pos, __first, __last, | ^~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1662:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In file included from /usr/include/boost/python/suite/indexing/indexing_suite.hpp:12, from /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:9, from /<>/Code/RDBoost/Wrap.h:24, from /<>/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:32: /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:689:9: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 689 | } | ^ /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:689:9: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:689:9: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/boost/python/suite/indexing/detail/indexing_suite_detail.hpp:689:9: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Fragment.cpp.o -c /<>/Code/GraphMol/MolStandardize/Fragment.cpp [ 89%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemReactions_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FragmentCatalogEntry.cpp.o -c /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.cpp [ 89%] Linking CXX executable rxnTestCatch cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/rxnTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -o rxnTestCatch ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Built target rxnTestCatch make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= Scanning dependencies of target MolDraw2D make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 89%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/QueryOps.h:19, from /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:14: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = RDGeom::Point3D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 509 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/QueryOps.h:19, from /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:14: /usr/include/c++/9/bits/stl_vector.h: In constructor ‘RDKit::Conformer::Conformer(unsigned int)’: /usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 957 | _M_fill_insert(end(), __new_size - size(), __x); | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/QueryOps.h:19, from /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:14: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o -c /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.cpp In file included from /usr/include/c++/9/vector:67, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/QueryOps.h:19, from /<>/Code/GraphMol/MolDraw2D/MolDraw2D.cpp:14: /usr/include/c++/9/bits/stl_vector.h: In member function ‘void RDKit::MolDraw2D::extractAtomCoords(const RDKit::ROMol&, int, bool)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Geometry/point.h:16, from /<>/Code/GraphMol/MolPickler.h:14, from /<>/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:32: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void RDKit::MolDraw2D::drawReaction(const RDKit::ChemicalReaction&, bool, const std::vector >*, const std::vector*)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h:14, from /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 89%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolDraw2D/MolDraw2DSVG.cpp [ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o -c /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.cpp [ 90%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o -c /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.cpp [ 90%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp [ 90%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp [ 90%] Linking CXX shared module ../../../../rdkit/Chem/rdChemReactions.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemReactions.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdChemReactions.so CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o ../../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread In file included from /usr/include/c++/9/vector:72, from /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h:15, from /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp:11: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const RDGeom::Point2D&}; _Tp = RDGeom::Point2D; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/vector:67, from /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h:15, from /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp:11: /usr/include/c++/9/bits/stl_vector.h: In function ‘void RDKit::MolDraw2D_detail::arcPoints(const RDGeom::Point2D&, const RDGeom::Point2D&, std::vector&, float, float)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 91%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h:14, from /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Built target rdChemReactions make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake --color= Scanning dependencies of target testRGroupDecomp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp /usr/include/c++/9/bits/vector.tcc: In member function ‘void RDKit::Dict::setVal(const string&, T&) [with T = std::__cxx11::basic_string]’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.cpp /<>/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp: In function ‘void testGitHubIssue1705()’: /<>/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp:451:11: warning: unused variable ‘res’ [-Wunused-variable] 451 | int res = decomp.add(*mol); | ^~~ [ 91%] Linking CXX executable testReaction cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testReaction.dir/testReaction.cpp.o -o testReaction ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lcoordgen -lmaeparser [ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.cpp make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Built target testReaction make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= Scanning dependencies of target rdRGroupDecomposition make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Building CXX object Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdRGroupDecomposition_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp [ 91%] Linking CXX executable testRGroupDecomp cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -o testRGroupDecomp ../../../lib/libRDKitRGroupDecomposition.so.1.2019.03.1 ../../../lib/libRDKitFMCS.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Built target testRGroupDecomp [ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o -c /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.cpp [ 91%] Linking CXX shared library ../../../lib/libRDKitMolDraw2D.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolDraw2D.so.1 -o ../../../lib/libRDKitMolDraw2D.so.1.2019.03.1 CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lboost_serialization cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolDraw2D.so.1.2019.03.1 ../../../lib/libRDKitMolDraw2D.so.1 ../../../lib/libRDKitMolDraw2D.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Built target MolDraw2D make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= Scanning dependencies of target moldraw2DRxnTest1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolDraw2D/rxn_test1.cpp [ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h:14, from /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc: In function ‘std::vector > RDKit::MolStandardize::readTransformations(std::istream&, int)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.cpp [ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.cpp [ 92%] Linking CXX executable moldraw2DRxnTest1 cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -o moldraw2DRxnTest1 ../../../lib/libRDKitMolDraw2D.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Built target moldraw2DRxnTest1 make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= Scanning dependencies of target moldraw2DTestCatch make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp [ 92%] Linking CXX shared module ../../../../rdkit/Chem/rdRGroupDecomposition.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdRGroupDecomposition.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdRGroupDecomposition.so CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o ../../../../lib/libRDKitRGroupDecomposition.so.1.2019.03.1 ../../../../lib/libRDKitFMCS.so.1.2019.03.1 ../../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Built target rdRGroupDecomposition make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake --color= Scanning dependencies of target moldraw2DTest1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 93%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolDraw2D/test1.cpp make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolDraw2D make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Building CXX object Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolDraw2D_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/Query/Query.h:18, from /<>/Code/Query/QueryObjects.h:20, from /<>/Code/GraphMol/Atom.h:25, from /<>/Code/GraphMol/RDKitBase.h:23, from /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h:14, from /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.cpp:10: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 /usr/include/c++/9/bits/vector.tcc: In function ‘std::vector RDKit::MolStandardize::readTautomers(std::istream&, int)’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 94%] Linking CXX shared library ../../../lib/libRDKitMolStandardize.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolStandardize.so.1 -o ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 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.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lboost_serialization cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../lib/libRDKitMolStandardize.so.1 ../../../lib/libRDKitMolStandardize.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target MolStandardize make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= Scanning dependencies of target rdmolops make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/rdmolops.cpp.o -c /<>/Code/GraphMol/Wrap/rdmolops.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolDraw2D/test1.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {RDKit::Dict::Pair}; _Tp = RDKit::Dict::Pair; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:60, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolDraw2D/test1.cpp:12: /usr/include/c++/9/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = int; _Val = std::pair; _KeyOfValue = std::_Select1st >; _Compare = std::less; _Alloc = std::allocator >]’: /usr/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 2452 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/9/map:61, from /<>/Code/RDGeneral/Dict.h:19, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolDraw2D/test1.cpp:12: /usr/include/c++/9/bits/stl_map.h: In function ‘void test3()’: /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, /usr/include/c++/9/bits/stl_map.h:518:8: note: parameter passing for argument of type ‘std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator >’} changed in GCC 7.1 518 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct, [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/Wrap/MolOps.cpp In file included from /usr/include/c++/9/vector:72, from /<>/Code/RDGeneral/Dict.h:21, from /<>/Code/RDGeneral/types.h:28, from /<>/Code/RDGeneral/utils.h:15, from /<>/Code/GraphMol/MolDraw2D/test1.cpp:12: /usr/include/c++/9/bits/vector.tcc: In function ‘void testGithub1322()’: /usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 95%] Linking CXX executable moldraw2DTest1 cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -o moldraw2DTest1 ../../../lib/libRDKitMolDraw2D.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target moldraw2DTest1 make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake --color= Scanning dependencies of target molChargeTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/testCharge.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolStandardize/testCharge.cpp /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp: In function ‘void RDKit::{anonymous}::pyDictToDoubleMap(boost::python::api::object, std::map&)’: /<>/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:69:57: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 69 | double r = python::extract(tDict.values()[i]); | ^ In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/MolDraw2D/catch_tests.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable molChargeTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molChargeTest.dir/testCharge.cpp.o -o molChargeTest ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Built target molChargeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= Scanning dependencies of target molStandardizeTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolStandardize/test1.cpp [ 96%] Linking CXX shared module ../../../../rdkit/Chem/Draw/rdMolDraw2D.so cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDraw2D.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/Draw/rdMolDraw2D.so CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o ../../../../lib/libRDKitMolDraw2D.so.1.2019.03.1 ../../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lboost_serialization make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Built target rdMolDraw2D make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake --color= Scanning dependencies of target molNormalizeTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolStandardize/testNormalize.cpp In file included from /<>/Code/GraphMol/Wrap/MolOps.cpp:30: /<>/Code/RDBoost/python_streambuf.h: In member function ‘virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)’: /<>/Code/RDBoost/python_streambuf.h:336:16: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 336 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Code/RDBoost/python_streambuf.h: In constructor ‘boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)’: /<>/Code/RDBoost/python_streambuf.h:185:56: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 185 | off_type py_pos = bp::extract(py_tell()); | ^ /<>/Code/RDBoost/python_streambuf.h:155:58: warning: ‘*((void*)& +16)’ may be used uninitialized in this function [-Wmaybe-uninitialized] 155 | off_type py_pos = bp::extract(py_tell()); | ^ [ 97%] Linking CXX executable molNormalizeTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -o molNormalizeTest ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target molNormalizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake --color= Scanning dependencies of target molFragmentTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/testFragment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -c /<>/Code/GraphMol/MolStandardize/testFragment.cpp [ 97%] Linking CXX executable molStandardizeTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molStandardizeTest.dir/test1.cpp.o -o molStandardizeTest ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target molStandardizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake --color= Scanning dependencies of target molValidateTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/testValidate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolStandardize/testValidate.cpp [ 97%] Linking CXX executable molFragmentTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -o molFragmentTest ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lboost_serialization make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target molFragmentTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake --color= Scanning dependencies of target molStandardizeSmallTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolStandardize/test2.cpp [ 97%] Linking CXX executable molValidateTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molValidateTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molValidateTest.dir/testValidate.cpp.o -o molValidateTest ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target molValidateTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake --color= Scanning dependencies of target molTautomerTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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 /<>/Code/GraphMol/MolStandardize/testTautomer.cpp [ 98%] Linking CXX executable moldraw2DTestCatch cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -o moldraw2DTestCatch ../../../lib/libRDKitMolDraw2D.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target moldraw2DTestCatch make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= Scanning dependencies of target molStandardizeCatchTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -c /<>/Code/GraphMol/MolStandardize/catch_tests.cpp [ 98%] Linking CXX shared module ../../../rdkit/Chem/rdmolops.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdmolops.so CMakeFiles/rdmolops.dir/rdmolops.cpp.o CMakeFiles/rdmolops.dir/MolOps.cpp.o ../../../lib/libRDKitMolDraw2D.so.1.2019.03.1 ../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lboost_serialization make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target rdmolops make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolStandardize make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Wrap/rdMolStandardize.cpp [ 99%] Linking CXX executable molStandardizeSmallTest cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeSmallTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -o molStandardizeSmallTest ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Built target molStandardizeSmallTest [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Wrap/Validate.cpp [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Wrap/Charge.cpp [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp In file included from /usr/include/c++/9/vector:72, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/MolStandardize/catch_tests.cpp:12: /usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Catch::SectionEndInfo&}; _Tp = Catch::SectionEndInfo; _Alloc = std::allocator]’: /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 In file included from /usr/include/c++/9/vector:67, from /<>/External/catch/catch/single_include/catch.hpp:465, from /<>/Code/GraphMol/MolStandardize/catch_tests.cpp:12: /usr/include/c++/9/bits/stl_vector.h: In member function ‘virtual void Catch::RunContext::sectionEndedEarly(const Catch::SectionEndInfo&)’: /usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o cd /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/<>/External/catch/catch/single_include -I/<>/External -I/usr/include/python3.7m -I/usr/lib/python3/dist-packages/numpy/core/include -I/<>/Code -I/<>/External/boost-numeric-bindings -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /<>/Code/GraphMol/MolStandardize/Wrap/Metal.cpp [ 99%] Linking CXX executable molTautomerTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -o molTautomerTest ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Built target molTautomerTest [100%] Linking CXX shared module ../../../../rdkit/Chem/MolStandardize/rdMolStandardize.so cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -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 ../../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../../lib/libRDKitRDBoost.so.1.2019.03.1 -lpython3.7m -lboost_python3 -lboost_serialization ../../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../../lib/libRDKitFileParsers.so.1.2019.03.1 ../../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lboost_serialization make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target rdMolStandardize [100%] Linking CXX executable molStandardizeCatchTest cd /<>/obj-arm-linux-gnueabihf/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -o molStandardizeCatchTest ../../../lib/libRDKitMolStandardize.so.1.2019.03.1 ../../../lib/libRDKitChemReactions.so.1.2019.03.1 ../../../lib/libRDKitChemTransforms.so.1.2019.03.1 ../../../lib/libRDKitDescriptors.so.1.2019.03.1 ../../../lib/libRDKitFileParsers.so.1.2019.03.1 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.1 ../../../lib/libRDKitDepictor.so.1.2019.03.1 ../../../lib/libRDKitMolAlign.so.1.2019.03.1 ../../../lib/libRDKitMolTransforms.so.1.2019.03.1 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.1 ../../../lib/libRDKitAlignment.so.1.2019.03.1 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.1 ../../../lib/libRDKitForceField.so.1.2019.03.1 ../../../lib/libRDKitOptimizer.so.1.2019.03.1 ../../../lib/libRDKitTrajectory.so.1.2019.03.1 -lcoordgen -lmaeparser ../../../lib/libRDKitFilterCatalog.so.1.2019.03.1 ../../../lib/libRDKitCatalogs.so.1.2019.03.1 ../../../lib/libRDKitFingerprints.so.1.2019.03.1 ../../../lib/libRDKitSmilesParse.so.1.2019.03.1 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.1 ../../../lib/libRDKitSubgraphs.so.1.2019.03.1 ../../../lib/libRDKitGraphMol.so.1.2019.03.1 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.1 ../../../lib/libRDKitDataStructs.so.1.2019.03.1 ../../../lib/libRDKitRDGeneral.so.1.2019.03.1 -lpthread -lboost_serialization make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target molStandardizeCatchTest make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles 0 make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' STATIC_LINK=0 RDKIT_LIBDIR=/<>/obj-arm-linux-gnueabihf//lib pg_buildext build /<>/Code/PgSQL/rdkit build-%v ### build 11 ### make[2]: Entering directory '/<>/build-11' gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o rdkit_io.o /<>/Code/PgSQL/rdkit/rdkit_io.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o mol_op.o /<>/Code/PgSQL/rdkit/mol_op.c /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘mol_murckoscaffold’: /<>/Code/PgSQL/rdkit/mol_op.c:265:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 265 | CROMol scaffold = MolMurckoScaffold(mol); | ^~~~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘mol_hash’: /<>/Code/PgSQL/rdkit/mol_op.c:285:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 285 | char *res = pnstrdup(str, len); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘mol_adjust_query_properties’: /<>/Code/PgSQL/rdkit/mol_op.c:298:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 298 | char *data = PG_GETARG_CSTRING(1); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c:302:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 302 | Mol *res = deconstructROMol(adj); | ^~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘mol_to_svg’: /<>/Code/PgSQL/rdkit/mol_op.c:317:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 317 | char *legend = PG_GETARG_CSTRING(1); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_smiles’: /<>/Code/PgSQL/rdkit/mol_op.c:341:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 341 | char *res = pnstrdup(str, strlen(str)); | ^~~~ In file included from /<>/Code/PgSQL/rdkit/mol_op.c:34: /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_mol2s_transition’: /usr/include/postgresql/11/server/fmgr.h:238:29: warning: initialization of ‘CROMol’ {aka ‘void *’} from ‘Datum’ {aka ‘unsigned int’} makes pointer from integer without a cast [-Wint-conversion] 238 | #define PG_GETARG_DATUM(n) (fcinfo->arg[n]) | ^ /<>/Code/PgSQL/rdkit/mol_op.c:393:18: note: in expansion of macro ‘PG_GETARG_DATUM’ 393 | CROMol mol = PG_GETARG_DATUM(1); | ^~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/mol_op.c:409:5: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 409 | text *ts = (text *)palloc(ts_size); // new return value | ^~~~ In file included from /<>/Code/PgSQL/rdkit/mol_op.c:34: /usr/include/postgresql/11/server/fmgr.h:238:29: warning: initialization of ‘CROMol’ {aka ‘void *’} from ‘Datum’ {aka ‘unsigned int’} makes pointer from integer without a cast [-Wint-conversion] 238 | #define PG_GETARG_DATUM(n) (fcinfo->arg[n]) | ^ /<>/Code/PgSQL/rdkit/mol_op.c:421:18: note: in expansion of macro ‘PG_GETARG_DATUM’ 421 | CROMol mol = PG_GETARG_DATUM(1); | ^~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/mol_op.c:429:5: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 429 | char *smiles = makeMolText(mol, &len, false); | ^~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_mols’: /<>/Code/PgSQL/rdkit/mol_op.c:467:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 467 | int32 ts_size = VARHDRSZ + strlen(str); | ^~~~~ In file included from /<>/Code/PgSQL/rdkit/mol_op.c:34: /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_mol_transition’: /usr/include/postgresql/11/server/fmgr.h:238:29: warning: initialization of ‘CROMol’ {aka ‘void *’} from ‘Datum’ {aka ‘unsigned int’} makes pointer from integer without a cast [-Wint-conversion] 238 | #define PG_GETARG_DATUM(n) (fcinfo->arg[n]) | ^ /<>/Code/PgSQL/rdkit/mol_op.c:489:18: note: in expansion of macro ‘PG_GETARG_DATUM’ 489 | CROMol mol = PG_GETARG_DATUM(1); | ^~~~~~~~~~~~~~~ /usr/include/postgresql/11/server/fmgr.h:238:29: warning: initialization of ‘CROMol’ {aka ‘void *’} from ‘Datum’ {aka ‘unsigned int’} makes pointer from integer without a cast [-Wint-conversion] 238 | #define PG_GETARG_DATUM(n) (fcinfo->arg[n]) | ^ /<>/Code/PgSQL/rdkit/mol_op.c:500:18: note: in expansion of macro ‘PG_GETARG_DATUM’ 500 | CROMol mol = PG_GETARG_DATUM(1); | ^~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_smiles_transition’: /<>/Code/PgSQL/rdkit/mol_op.c:373:1: warning: control reaches end of non-void function [-Wreturn-type] 373 | } | ^ /<>/Code/PgSQL/rdkit/mol_op.c: In function ‘fmcs_mol_transition’: /<>/Code/PgSQL/rdkit/mol_op.c:508:1: warning: control reaches end of non-void function [-Wreturn-type] 508 | } | ^ gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o bfp_op.o /<>/Code/PgSQL/rdkit/bfp_op.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o sfp_op.o /<>/Code/PgSQL/rdkit/sfp_op.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o rxn_op.o /<>/Code/PgSQL/rdkit/rxn_op.c /<>/Code/PgSQL/rdkit/rxn_op.c:164:1: warning: multi-line comment [-Wcomment] 164 | // /* keep compiler quiet - no extra ; */ \ | ^ /<>/Code/PgSQL/rdkit/rxn_op.c: In function ‘reaction_to_svg’: /<>/Code/PgSQL/rdkit/rxn_op.c:179:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 179 | bool highlightByReactants = PG_GETARG_BOOL(1); | ^~~~ gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o rdkit_gist.o /<>/Code/PgSQL/rdkit/rdkit_gist.c /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘soergeldistsign’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:240:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 240 | uint8 *as = (uint8 *)VARDATA(a); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘soergeldist’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:275:16: warning: implicit declaration of function ‘floor’ [-Wimplicit-function-declaration] 275 | return (int) floor(10000*soergeldistsign(a, b)); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:275:16: warning: incompatible implicit declaration of built-in function ‘floor’ /<>/Code/PgSQL/rdkit/rdkit_gist.c:42:1: note: include ‘’ or provide a declaration of ‘floor’ 41 | #include "bitstring.h" +++ |+#include 42 | /<>/Code/PgSQL/rdkit/rdkit_gist.c:262:10: warning: unused variable ‘d’ [-Wunused-variable] 262 | double d; | ^ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘gmol_consistent’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:526:7: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 526 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:538:7: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 538 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:570:7: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 570 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘rdkit_consistent’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:658:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 658 | int siglen = SIGLEN(query); | ^~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:673:5: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 673 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘gsfp_consistent’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:708:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 708 | int sum, overlapSum, overlapN; | ^~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:714:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 714 | int nKey = (ISALLTRUE(key)) ? | ^~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c: In function ‘greaction_consistent’: /<>/Code/PgSQL/rdkit/rdkit_gist.c:787:7: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 787 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:804:7: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 804 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:832:7: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 832 | uint8 *k = (uint8 *)VARDATA(key); | ^~~~~ At top level: /<>/Code/PgSQL/rdkit/rdkit_gist.c:646:1: warning: ‘rdkit_consistent’ defined but not used [-Wunused-function] 646 | rdkit_consistent(GISTENTRY *entry, StrategyNumber strategy, bytea *key, bytea *query) | ^~~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/rdkit_gist.c:261:1: warning: ‘soergeldist’ defined but not used [-Wunused-function] 261 | soergeldist(bytea *a, bytea *b) { | ^~~~~~~~~~~ gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o bfp_gist.o /<>/Code/PgSQL/rdkit/bfp_gist.c /<>/Code/PgSQL/rdkit/bfp_gist.c: In function ‘merge_key’: /<>/Code/PgSQL/rdkit/bfp_gist.c:699:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement] 699 | int siglen = GBFP_INNER_SIGLEN(result); | ^~~ gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o bfp_gin.o /<>/Code/PgSQL/rdkit/bfp_gin.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o low_gist.o /<>/Code/PgSQL/rdkit/low_gist.c /<>/Code/PgSQL/rdkit/low_gist.c: In function ‘gslfp_consistent’: /<>/Code/PgSQL/rdkit/low_gist.c:410:30: warning: implicit declaration of function ‘searchSfpCache’ [-Wimplicit-function-declaration] 410 | fcinfo->flinfo->fn_extra = searchSfpCache( | ^~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/low_gist.c:410:28: warning: assignment to ‘void *’ from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 410 | fcinfo->flinfo->fn_extra = searchSfpCache( | ^ gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o guc.o /<>/Code/PgSQL/rdkit/guc.c gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o cache.o /<>/Code/PgSQL/rdkit/cache.c /<>/Code/PgSQL/rdkit/cache.c: In function ‘createCache’: /<>/Code/PgSQL/rdkit/cache.c:312:17: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 312 | methodsOrig = ctx->methods; | ^ In file included from /usr/include/postgresql/11/server/postgres.h:47, from /<>/Code/PgSQL/rdkit/cache.c:33: /<>/Code/PgSQL/rdkit/cache.c:341:19: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘unsigned int’ [-Wformat=] 341 | elog(ERROR, "Could not allocate %ld bytes", sizeof(*newholder)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~ | | | unsigned int /usr/include/postgresql/11/server/utils/elog.h:202:23: note: in definition of macro ‘elog’ 202 | elog_finish(elevel, __VA_ARGS__); \ | ^~~~~~~~~~~ /<>/Code/PgSQL/rdkit/cache.c:341:41: note: format string is defined here 341 | elog(ERROR, "Could not allocate %ld bytes", sizeof(*newholder)); | ~~^ | | | long int | %d g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-unused-function -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o adapter.o /<>/Code/PgSQL/rdkit/adapter.cpp gcc -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -fPIC -c -o bitstring.o /<>/Code/PgSQL/rdkit/bitstring.c /<>/Code/PgSQL/rdkit/bitstring.c: In function ‘bitstringUnion’: /<>/Code/PgSQL/rdkit/bitstring.c:72:7: warning: unused variable ‘i’ [-Wunused-variable] 72 | int i; | ^ /<>/Code/PgSQL/rdkit/bitstring.c: In function ‘bitstringIntersection’: /<>/Code/PgSQL/rdkit/bitstring.c:106:7: warning: unused variable ‘i’ [-Wunused-variable] 106 | int i; | ^ g++ -Wall -Wmissing-prototypes -Wpointer-arith -Wdeclaration-after-statement -Wendif-labels -Wmissing-format-attribute -Wformat-security -fno-strict-aliasing -fwrapv -fexcess-precision=standard -Wno-format-truncation -Wno-stringop-truncation -g -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -shared -o rdkit.so rdkit_io.o mol_op.o bfp_op.o sfp_op.o rxn_op.o rdkit_gist.o bfp_gist.o bfp_gin.o low_gist.o guc.o cache.o adapter.o bitstring.o -L/usr/lib/arm-linux-gnueabihf -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -L/usr/lib/llvm-7/lib -L/usr/lib/arm-linux-gnueabihf/mit-krb5 -Wl,--as-needed -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -L/<>/obj-arm-linux-gnueabihf//lib -lRDKitMolDraw2D -lRDKitMolTransforms -lRDKitMolHash -lRDKitFMCS -lRDKitChemReactions -lRDKitChemTransforms -lRDKitFileParsers -lRDKitSmilesParse -lRDKitFingerprints -lRDKitSubgraphs -lRDKitDescriptors -lRDKitPartialCharges -lRDKitSubstructMatch -lRDKitGraphMol -lRDKitEigenSolvers -lRDKitDataStructs -lRDKitDepictor -lRDKitRDGeometryLib -lRDKitRDGeneral -pthread sed -e's/@RDKIT_PG_BFP_GIST_FETCH@/FUNCTION 9 gbfp_fetch (internal),/;' \ -e's/@RDKIT_GIN_BFP_TRICONSISTENT@/FUNCTION 6 gin_bfp_triconsistent(internal, int2, bfp, int4, internal, internal, internal),/' \ -e's/@RDKIT_PARALLEL_SAFE@/PARALLEL SAFE/' \ /<>/Code/PgSQL/rdkit/rdkit.sql.in > rdkit--3.7.sql /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o rdkit_io.bc /<>/Code/PgSQL/rdkit/rdkit_io.c /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o mol_op.bc /<>/Code/PgSQL/rdkit/mol_op.c /<>/Code/PgSQL/rdkit/mol_op.c:373:1: warning: control may reach end of non-void function [-Wreturn-type] } ^ /<>/Code/PgSQL/rdkit/mol_op.c:393:12: warning: incompatible integer to pointer conversion initializing 'CROMol' (aka 'void *') with an expression of type 'Datum' (aka 'unsigned int') [-Wint-conversion] CROMol mol = PG_GETARG_DATUM(1); ^ ~~~~~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/mol_op.c:421:12: warning: incompatible integer to pointer conversion initializing 'CROMol' (aka 'void *') with an expression of type 'Datum' (aka 'unsigned int') [-Wint-conversion] CROMol mol = PG_GETARG_DATUM(1); ^ ~~~~~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/mol_op.c:489:12: warning: incompatible integer to pointer conversion initializing 'CROMol' (aka 'void *') with an expression of type 'Datum' (aka 'unsigned int') [-Wint-conversion] CROMol mol = PG_GETARG_DATUM(1); ^ ~~~~~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/mol_op.c:500:12: warning: incompatible integer to pointer conversion initializing 'CROMol' (aka 'void *') with an expression of type 'Datum' (aka 'unsigned int') [-Wint-conversion] CROMol mol = PG_GETARG_DATUM(1); ^ ~~~~~~~~~~~~~~~~~~ /<>/Code/PgSQL/rdkit/mol_op.c:508:1: warning: control may reach end of non-void function [-Wreturn-type] } ^ 6 warnings generated. /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o bfp_op.bc /<>/Code/PgSQL/rdkit/bfp_op.c /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o sfp_op.bc /<>/Code/PgSQL/rdkit/sfp_op.c /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o rxn_op.bc /<>/Code/PgSQL/rdkit/rxn_op.c /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o rdkit_gist.bc /<>/Code/PgSQL/rdkit/rdkit_gist.c /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o bfp_gist.bc /<>/Code/PgSQL/rdkit/bfp_gist.c /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o bfp_gin.bc /<>/Code/PgSQL/rdkit/bfp_gin.c /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o low_gist.bc /<>/Code/PgSQL/rdkit/low_gist.c /<>/Code/PgSQL/rdkit/low_gist.c:410:30: warning: implicit declaration of function 'searchSfpCache' is invalid in C99 [-Wimplicit-function-declaration] fcinfo->flinfo->fn_extra = searchSfpCache( ^ /<>/Code/PgSQL/rdkit/low_gist.c:410:28: warning: incompatible integer to pointer conversion assigning to 'void *' from 'int' [-Wint-conversion] fcinfo->flinfo->fn_extra = searchSfpCache( ^ ~~~~~~~~~~~~~~~ 2 warnings generated. /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o guc.bc /<>/Code/PgSQL/rdkit/guc.c /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o cache.bc /<>/Code/PgSQL/rdkit/cache.c /<>/Code/PgSQL/rdkit/cache.c:312:17: warning: assigning to 'MemoryContextMethods *' (aka 'struct MemoryContextMethods *') from 'const MemoryContextMethods *' (aka 'const struct MemoryContextMethods *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers] methodsOrig = ctx->methods; ^ ~~~~~~~~~~~~ 1 warning generated. /usr/bin/clang-7 -xc++ -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -emit-llvm -c -o adapter.bc /<>/Code/PgSQL/rdkit/adapter.cpp In file included from /<>/Code/PgSQL/rdkit/adapter.cpp:54: /<>/Code/GraphMol/MolDraw2D/MolDraw2DSVG.h:72:8: warning: 'tagAtoms' overrides a member function but is not marked 'override' [-Winconsistent-missing-override] void tagAtoms(const ROMol &mol) { tagAtoms(mol, 0.2); } ^ /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:392:16: note: overridden virtual function is here virtual void tagAtoms(const ROMol &mol) { RDUNUSED_PARAM(mol); }; ^ 1 warning generated. opt-7 -module-summary -f adapter.bc -o adapter.bc /usr/bin/clang-7 -Wno-ignored-attributes -fno-strict-aliasing -fwrapv -O2 -I/usr/local/include -I/<>/Code -DRDKITVER='"007300"' -I. -I/<>/Code/PgSQL/rdkit -I/usr/include/postgresql/11/server -I/usr/include/postgresql/internal -Wdate-time -D_FORTIFY_SOURCE=2 -D_GNU_SOURCE -I/usr/include/libxml2 -I/usr/include/mit-krb5 -flto=thin -emit-llvm -c -o bitstring.bc /<>/Code/PgSQL/rdkit/bitstring.c make[2]: Leaving directory '/<>/build-11' (cd /<>/Code; doxygen doxygen/doxygen.config) warning: Tag `SYMBOL_CACHE_SIZE' at line 337 of file `doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag `SHOW_DIRECTORIES' at line 557 of file `doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag `HTML_ALIGN_MEMBERS' at line 971 of file `doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag `USE_INLINE_TREES' at line 1162 of file `doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag `XML_SCHEMA' at line 1425 of file `doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag `XML_DTD' at line 1431 of file `doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: doxygen no longer ships with the FreeSans font. You may want to clear or change DOT_FONTNAME. Otherwise you run the risk that the wrong font is being used for dot generated graphs. Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... Searching for files to exclude Searching INPUT for files to process... Searching for files in directory /<>/Code/GraphMol Searching for files in directory /<>/Code/GraphMol/ChemReactions Searching for files in directory /<>/Code/GraphMol/ChemReactions/Enumerate Searching for files in directory /<>/Code/GraphMol/ChemReactions/tutorial Searching for files in directory /<>/Code/GraphMol/ChemTransforms Searching for files in directory /<>/Code/GraphMol/Depictor Searching for files in directory /<>/Code/GraphMol/Descriptors Searching for files in directory /<>/Code/GraphMol/DistGeomHelpers Searching for files in directory /<>/Code/GraphMol/FileParsers Searching for files in directory /<>/Code/GraphMol/FilterCatalog Searching for files in directory /<>/Code/GraphMol/Fingerprints Searching for files in directory /<>/Code/GraphMol/FMCS Searching for files in directory /<>/Code/GraphMol/FMCS/Test Searching for files in directory /<>/Code/GraphMol/ForceFieldHelpers Searching for files in directory /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF Searching for files in directory /<>/Code/GraphMol/ForceFieldHelpers/MMFF Searching for files in directory /<>/Code/GraphMol/ForceFieldHelpers/UFF Searching for files in directory /<>/Code/GraphMol/FragCatalog Searching for files in directory /<>/Code/GraphMol/libs Searching for files in directory /<>/Code/GraphMol/MMPA Searching for files in directory /<>/Code/GraphMol/MolAlign Searching for files in directory /<>/Code/GraphMol/MolCatalog Searching for files in directory /<>/Code/GraphMol/MolChemicalFeatures Searching for files in directory /<>/Code/GraphMol/MolDraw2D Searching for files in directory /<>/Code/GraphMol/MolDraw2D/QTDemo Searching for files in directory /<>/Code/GraphMol/MolHash Searching for files in directory /<>/Code/GraphMol/MolInterchange Searching for files in directory /<>/Code/GraphMol/MolStandardize Searching for files in directory /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog Searching for files in directory /<>/Code/GraphMol/MolStandardize/FragmentCatalog Searching for files in directory /<>/Code/GraphMol/MolStandardize/TautomerCatalog Searching for files in directory /<>/Code/GraphMol/MolStandardize/TransformCatalog Searching for files in directory /<>/Code/GraphMol/MolTransforms Searching for files in directory /<>/Code/GraphMol/PartialCharges Searching for files in directory /<>/Code/GraphMol/ReducedGraphs Searching for files in directory /<>/Code/GraphMol/RGroupDecomposition Searching for files in directory /<>/Code/GraphMol/ShapeHelpers Searching for files in directory /<>/Code/GraphMol/SLNParse Searching for files in directory /<>/Code/GraphMol/SmilesParse Searching for files in directory /<>/Code/GraphMol/StructChecker Searching for files in directory /<>/Code/GraphMol/Subgraphs Searching for files in directory /<>/Code/GraphMol/Substruct Searching for files in directory /<>/Code/GraphMol/SubstructLibrary Searching for files in directory /<>/Code/GraphMol/Trajectory Searching for files in directory /<>/Code/Catalogs Searching for files in directory /<>/Code/DataStructs Searching for files in directory /<>/Code/Query Searching for files in directory /<>/Code/ML Searching for files in directory /<>/Code/ML/Cluster Searching for files in directory /<>/Code/ML/Cluster/Murtagh Searching for files in directory /<>/Code/ML/Data Searching for files in directory /<>/Code/ML/InfoTheory Searching for files in directory /<>/Code/DataManip Searching for files in directory /<>/Code/DataManip/MetricMatrixCalc Searching for files in directory /<>/Code/SimDivPickers Searching for files in directory /<>/Code/RDGeneral Searching for files in directory /<>/Code/RDGeneral/hash Searching for files in directory /<>/Code/RDGeneral/hash/detail Searching for files in directory /<>/Code/RDBoost Searching for files in directory /<>/Code/DistGeom Searching for files in directory /<>/Code/ForceField Searching for files in directory /<>/Code/ForceField/MMFF Searching for files in directory /<>/Code/ForceField/UFF Searching for files in directory /<>/Code/Numerics Searching for files in directory /<>/Code/Numerics/Alignment Searching for files in directory /<>/Code/Numerics/EigenSolvers Searching for files in directory /<>/Code/Numerics/Optimizer Searching for files in directory /<>/Code/Geometry Searching for files in directory /<>/Code/Features Searching for files in directory /<>/Code/ChemicalFeatures Reading and parsing tag files Parsing files Preprocessing /<>/Code/GraphMol/Atom.h... Parsing file /<>/Code/GraphMol/Atom.h... Preprocessing /<>/Code/GraphMol/atomic_data.h... Parsing file /<>/Code/GraphMol/atomic_data.h... Preprocessing /<>/Code/GraphMol/AtomIterators.h... Parsing file /<>/Code/GraphMol/AtomIterators.h... Preprocessing /<>/Code/GraphMol/Bond.h... Parsing file /<>/Code/GraphMol/Bond.h... Preprocessing /<>/Code/GraphMol/BondIterators.h... Parsing file /<>/Code/GraphMol/BondIterators.h... Preprocessing /<>/Code/GraphMol/Canon.h... Parsing file /<>/Code/GraphMol/Canon.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/CartesianProduct.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/CartesianProduct.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/Enumerate.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/Enumerate.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerateBase.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerateBase.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/RandomSample.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/RandomSample.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h... Parsing file /<>/Code/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h... Preprocessing /<>/Code/GraphMol/ChemReactions/PreprocessRxn.h... Parsing file /<>/Code/GraphMol/ChemReactions/PreprocessRxn.h... Preprocessing /<>/Code/GraphMol/ChemReactions/Reaction.h... Parsing file /<>/Code/GraphMol/ChemReactions/Reaction.h... Preprocessing /<>/Code/GraphMol/ChemReactions/ReactionFingerprints.h... Parsing file /<>/Code/GraphMol/ChemReactions/ReactionFingerprints.h... Preprocessing /<>/Code/GraphMol/ChemReactions/ReactionParser.h... Parsing file /<>/Code/GraphMol/ChemReactions/ReactionParser.h... Preprocessing /<>/Code/GraphMol/ChemReactions/ReactionPickler.h... Parsing file /<>/Code/GraphMol/ChemReactions/ReactionPickler.h... Preprocessing /<>/Code/GraphMol/ChemReactions/ReactionRunner.h... Parsing file /<>/Code/GraphMol/ChemReactions/ReactionRunner.h... Preprocessing /<>/Code/GraphMol/ChemReactions/ReactionUtils.h... Parsing file /<>/Code/GraphMol/ChemReactions/ReactionUtils.h... Preprocessing /<>/Code/GraphMol/ChemReactions/SanitizeRxn.h... Parsing file /<>/Code/GraphMol/ChemReactions/SanitizeRxn.h... Preprocessing /<>/Code/GraphMol/ChemTransforms/ChemTransforms.h... Parsing file /<>/Code/GraphMol/ChemTransforms/ChemTransforms.h... Preprocessing /<>/Code/GraphMol/ChemTransforms/MolFragmenter.h... Parsing file /<>/Code/GraphMol/ChemTransforms/MolFragmenter.h... Preprocessing /<>/Code/GraphMol/Chirality.h... Parsing file /<>/Code/GraphMol/Chirality.h... Preprocessing /<>/Code/GraphMol/Conformer.h... Parsing file /<>/Code/GraphMol/Conformer.h... Preprocessing /<>/Code/GraphMol/Depictor/DepictUtils.h... Parsing file /<>/Code/GraphMol/Depictor/DepictUtils.h... Preprocessing /<>/Code/GraphMol/Depictor/EmbeddedFrag.h... Parsing file /<>/Code/GraphMol/Depictor/EmbeddedFrag.h... Preprocessing /<>/Code/GraphMol/Depictor/RDDepictor.h... Parsing file /<>/Code/GraphMol/Depictor/RDDepictor.h... Preprocessing /<>/Code/GraphMol/Descriptors/AUTOCORR2D.h... Parsing file /<>/Code/GraphMol/Descriptors/AUTOCORR2D.h... Preprocessing /<>/Code/GraphMol/Descriptors/AUTOCORR3D.h... Parsing file /<>/Code/GraphMol/Descriptors/AUTOCORR3D.h... Preprocessing /<>/Code/GraphMol/Descriptors/ConnectivityDescriptors.h... Parsing file /<>/Code/GraphMol/Descriptors/ConnectivityDescriptors.h... Preprocessing /<>/Code/GraphMol/Descriptors/Crippen.h... Parsing file /<>/Code/GraphMol/Descriptors/Crippen.h... Preprocessing /<>/Code/GraphMol/Descriptors/Data3Ddescriptors.h... Parsing file /<>/Code/GraphMol/Descriptors/Data3Ddescriptors.h... Preprocessing /<>/Code/GraphMol/Descriptors/EEM.h... Parsing file /<>/Code/GraphMol/Descriptors/EEM.h... Preprocessing /<>/Code/GraphMol/Descriptors/GETAWAY.h... Parsing file /<>/Code/GraphMol/Descriptors/GETAWAY.h... Preprocessing /<>/Code/GraphMol/Descriptors/Lipinski.h... Parsing file /<>/Code/GraphMol/Descriptors/Lipinski.h... Preprocessing /<>/Code/GraphMol/Descriptors/MolData3Ddescriptors.h... Parsing file /<>/Code/GraphMol/Descriptors/MolData3Ddescriptors.h... Preprocessing /<>/Code/GraphMol/Descriptors/MolDescriptors.h... Parsing file /<>/Code/GraphMol/Descriptors/MolDescriptors.h... Preprocessing /<>/Code/GraphMol/Descriptors/MolDescriptors3D.h... Parsing file /<>/Code/GraphMol/Descriptors/MolDescriptors3D.h... Preprocessing /<>/Code/GraphMol/Descriptors/MolSurf.h... Parsing file /<>/Code/GraphMol/Descriptors/MolSurf.h... Preprocessing /<>/Code/GraphMol/Descriptors/MORSE.h... Parsing file /<>/Code/GraphMol/Descriptors/MORSE.h... Preprocessing /<>/Code/GraphMol/Descriptors/MQN.h... Parsing file /<>/Code/GraphMol/Descriptors/MQN.h... Preprocessing /<>/Code/GraphMol/Descriptors/PBF.h... Parsing file /<>/Code/GraphMol/Descriptors/PBF.h... Preprocessing /<>/Code/GraphMol/Descriptors/PMI.h... Parsing file /<>/Code/GraphMol/Descriptors/PMI.h... Preprocessing /<>/Code/GraphMol/Descriptors/Property.h... Parsing file /<>/Code/GraphMol/Descriptors/Property.h... Preprocessing /<>/Code/GraphMol/Descriptors/RDF.h... Parsing file /<>/Code/GraphMol/Descriptors/RDF.h... Preprocessing /<>/Code/GraphMol/Descriptors/RegisterDescriptor.h... Parsing file /<>/Code/GraphMol/Descriptors/RegisterDescriptor.h... Preprocessing /<>/Code/GraphMol/Descriptors/USRDescriptor.h... Parsing file /<>/Code/GraphMol/Descriptors/USRDescriptor.h... Preprocessing /<>/Code/GraphMol/Descriptors/WHIM.h... Parsing file /<>/Code/GraphMol/Descriptors/WHIM.h... Preprocessing /<>/Code/GraphMol/details.h... Parsing file /<>/Code/GraphMol/details.h... Preprocessing /<>/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h... Parsing file /<>/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h... Preprocessing /<>/Code/GraphMol/DistGeomHelpers/Embedder.h... Parsing file /<>/Code/GraphMol/DistGeomHelpers/Embedder.h... Preprocessing /<>/Code/GraphMol/FileParsers/FileParsers.h... Parsing file /<>/Code/GraphMol/FileParsers/FileParsers.h... Preprocessing /<>/Code/GraphMol/FileParsers/FileParserUtils.h... Parsing file /<>/Code/GraphMol/FileParsers/FileParserUtils.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolFileStereochem.h... Parsing file /<>/Code/GraphMol/FileParsers/MolFileStereochem.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolSGroupParsing.h... Parsing file /<>/Code/GraphMol/FileParsers/MolSGroupParsing.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h... Parsing file /<>/Code/GraphMol/FileParsers/MolSGroupWriting.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolSupplier.h... Parsing file /<>/Code/GraphMol/FileParsers/MolSupplier.h... Preprocessing /<>/Code/GraphMol/FileParsers/MolWriters.h... Parsing file /<>/Code/GraphMol/FileParsers/MolWriters.h... Preprocessing /<>/Code/GraphMol/FileParsers/ProximityBonds.h... Parsing file /<>/Code/GraphMol/FileParsers/ProximityBonds.h... Preprocessing /<>/Code/GraphMol/FileParsers/SequenceParsers.h... Parsing file /<>/Code/GraphMol/FileParsers/SequenceParsers.h... Preprocessing /<>/Code/GraphMol/FileParsers/SequenceWriters.h... Parsing file /<>/Code/GraphMol/FileParsers/SequenceWriters.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FilterCatalog.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FilterCatalog.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/Filters.h... Parsing file /<>/Code/GraphMol/FilterCatalog/Filters.h... Preprocessing /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h... Parsing file /<>/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h... Preprocessing /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.h... Preprocessing /<>/Code/GraphMol/Fingerprints/AtomPairs.h... Parsing file /<>/Code/GraphMol/Fingerprints/AtomPairs.h... Preprocessing /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h... Preprocessing /<>/Code/GraphMol/Fingerprints/Fingerprints.h... Parsing file /<>/Code/GraphMol/Fingerprints/Fingerprints.h... Preprocessing /<>/Code/GraphMol/Fingerprints/FingerprintUtil.h... Parsing file /<>/Code/GraphMol/Fingerprints/FingerprintUtil.h... Preprocessing /<>/Code/GraphMol/Fingerprints/MACCS.h... Parsing file /<>/Code/GraphMol/Fingerprints/MACCS.h... Preprocessing /<>/Code/GraphMol/Fingerprints/MorganFingerprints.h... Parsing file /<>/Code/GraphMol/Fingerprints/MorganFingerprints.h... Preprocessing /<>/Code/GraphMol/Fingerprints/MorganGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/MorganGenerator.h... Preprocessing /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h... Preprocessing /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h... Parsing file /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h... Preprocessing /<>/Code/GraphMol/FMCS/Composition2N.h... Parsing file /<>/Code/GraphMol/FMCS/Composition2N.h... Preprocessing /<>/Code/GraphMol/FMCS/DebugTrace.h... Parsing file /<>/Code/GraphMol/FMCS/DebugTrace.h... Preprocessing /<>/Code/GraphMol/FMCS/DuplicatedSeedCache.h... Parsing file /<>/Code/GraphMol/FMCS/DuplicatedSeedCache.h... Preprocessing /<>/Code/GraphMol/FMCS/FMCS.h... Parsing file /<>/Code/GraphMol/FMCS/FMCS.h... Preprocessing /<>/Code/GraphMol/FMCS/Graph.h... Parsing file /<>/Code/GraphMol/FMCS/Graph.h... Preprocessing /<>/Code/GraphMol/FMCS/MatchTable.h... Parsing file /<>/Code/GraphMol/FMCS/MatchTable.h... Preprocessing /<>/Code/GraphMol/FMCS/MaximumCommonSubgraph.h... Parsing file /<>/Code/GraphMol/FMCS/MaximumCommonSubgraph.h... Preprocessing /<>/Code/GraphMol/FMCS/RingMatchTableSet.h... Parsing file /<>/Code/GraphMol/FMCS/RingMatchTableSet.h... Preprocessing /<>/Code/GraphMol/FMCS/Seed.h... Parsing file /<>/Code/GraphMol/FMCS/Seed.h... Preprocessing /<>/Code/GraphMol/FMCS/SeedSet.h... Parsing file /<>/Code/GraphMol/FMCS/SeedSet.h... Preprocessing /<>/Code/GraphMol/FMCS/SubstructMatchCustom.h... Parsing file /<>/Code/GraphMol/FMCS/SubstructMatchCustom.h... Preprocessing /<>/Code/GraphMol/FMCS/SubstructureCache.h... Parsing file /<>/Code/GraphMol/FMCS/SubstructureCache.h... Preprocessing /<>/Code/GraphMol/FMCS/Target.h... Parsing file /<>/Code/GraphMol/FMCS/Target.h... Preprocessing /<>/Code/GraphMol/FMCS/TargetMatch.h... Parsing file /<>/Code/GraphMol/FMCS/TargetMatch.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/MMFF/MMFF.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/MMFF/MMFF.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/UFF/Builder.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/UFF/Builder.h... Preprocessing /<>/Code/GraphMol/ForceFieldHelpers/UFF/UFF.h... Parsing file /<>/Code/GraphMol/ForceFieldHelpers/UFF/UFF.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragCatalogEntry.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragCatalogUtils.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragCatalogUtils.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragCatGenerator.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragCatGenerator.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragCatParams.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragCatParams.h... Preprocessing /<>/Code/GraphMol/FragCatalog/FragFPGenerator.h... Parsing file /<>/Code/GraphMol/FragCatalog/FragFPGenerator.h... Preprocessing /<>/Code/GraphMol/GraphMol.h... Parsing file /<>/Code/GraphMol/GraphMol.h... Preprocessing /<>/Code/GraphMol/MMPA/MMPA.h... Parsing file /<>/Code/GraphMol/MMPA/MMPA.h... Preprocessing /<>/Code/GraphMol/MolAlign/AlignMolecules.h... Parsing file /<>/Code/GraphMol/MolAlign/AlignMolecules.h... Preprocessing /<>/Code/GraphMol/MolAlign/O3AAlignMolecules.h... Parsing file /<>/Code/GraphMol/MolAlign/O3AAlignMolecules.h... Preprocessing /<>/Code/GraphMol/MolBundle.h... Parsing file /<>/Code/GraphMol/MolBundle.h... Preprocessing /<>/Code/GraphMol/MolCatalog/MolCatalog.h... Parsing file /<>/Code/GraphMol/MolCatalog/MolCatalog.h... Preprocessing /<>/Code/GraphMol/MolCatalog/MolCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolCatalog/MolCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolCatalog/MolCatalogParams.h... Parsing file /<>/Code/GraphMol/MolCatalog/MolCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.h... Parsing file /<>/Code/GraphMol/MolChemicalFeatures/FeatureParser.h... Preprocessing /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.h... Parsing file /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.h... Preprocessing /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h... Parsing file /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h... Preprocessing /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h... Parsing file /<>/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DCairo.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DCairo.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DQt.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DQt.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DSVG.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DSVG.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2DUtils.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2DUtils.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MolDraw2Dwx.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MolDraw2Dwx.h... Preprocessing /<>/Code/GraphMol/MolDraw2D/MultiMolDraw2D.h... Parsing file /<>/Code/GraphMol/MolDraw2D/MultiMolDraw2D.h... Preprocessing /<>/Code/GraphMol/MolHash/MolHash.h... Parsing file /<>/Code/GraphMol/MolHash/MolHash.h... Preprocessing /<>/Code/GraphMol/MolInterchange/details.h... Parsing file /<>/Code/GraphMol/MolInterchange/details.h... Preprocessing /<>/Code/GraphMol/MolInterchange/MolInterchange.h... Parsing file /<>/Code/GraphMol/MolInterchange/MolInterchange.h... Preprocessing /<>/Code/GraphMol/MolOps.h... Parsing file /<>/Code/GraphMol/MolOps.h... Preprocessing /<>/Code/GraphMol/MolPickler.h... Parsing file /<>/Code/GraphMol/MolPickler.h... Preprocessing /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h... Parsing file /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h... Parsing file /<>/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Charge.h... Parsing file /<>/Code/GraphMol/MolStandardize/Charge.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Fragment.h... Parsing file /<>/Code/GraphMol/MolStandardize/Fragment.h... Preprocessing /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h... Parsing file /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h... Parsing file /<>/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Metal.h... Parsing file /<>/Code/GraphMol/MolStandardize/Metal.h... Preprocessing /<>/Code/GraphMol/MolStandardize/MolStandardize.h... Parsing file /<>/Code/GraphMol/MolStandardize/MolStandardize.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Normalize.h... Parsing file /<>/Code/GraphMol/MolStandardize/Normalize.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Tautomer.h... Parsing file /<>/Code/GraphMol/MolStandardize/Tautomer.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h... Parsing file /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h... Parsing file /<>/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h... Parsing file /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h... Parsing file /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h... Preprocessing /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h... Parsing file /<>/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h... Preprocessing /<>/Code/GraphMol/MolStandardize/Validate.h... Parsing file /<>/Code/GraphMol/MolStandardize/Validate.h... Preprocessing /<>/Code/GraphMol/MolTransforms/MolTransforms.h... Parsing file /<>/Code/GraphMol/MolTransforms/MolTransforms.h... Preprocessing /<>/Code/GraphMol/MonomerInfo.h... Parsing file /<>/Code/GraphMol/MonomerInfo.h... Preprocessing /<>/Code/GraphMol/new_canon.h... Parsing file /<>/Code/GraphMol/new_canon.h... Preprocessing /<>/Code/GraphMol/PartialCharges/GasteigerCharges.h... Parsing file /<>/Code/GraphMol/PartialCharges/GasteigerCharges.h... Preprocessing /<>/Code/GraphMol/PartialCharges/GasteigerParams.h... Parsing file /<>/Code/GraphMol/PartialCharges/GasteigerParams.h... Preprocessing /<>/Code/GraphMol/PeriodicTable.h... Parsing file /<>/Code/GraphMol/PeriodicTable.h... Preprocessing /<>/Code/GraphMol/QueryAtom.h... Parsing file /<>/Code/GraphMol/QueryAtom.h... Preprocessing /<>/Code/GraphMol/QueryBond.h... Parsing file /<>/Code/GraphMol/QueryBond.h... Preprocessing /<>/Code/GraphMol/QueryOps.h... Parsing file /<>/Code/GraphMol/QueryOps.h... Preprocessing /<>/Code/GraphMol/RDKitBase.h... Parsing file /<>/Code/GraphMol/RDKitBase.h... Preprocessing /<>/Code/GraphMol/RDKitQueries.h... Parsing file /<>/Code/GraphMol/RDKitQueries.h... Preprocessing /<>/Code/GraphMol/ReducedGraphs/ReducedGraphs.h... Parsing file /<>/Code/GraphMol/ReducedGraphs/ReducedGraphs.h... Preprocessing /<>/Code/GraphMol/Resonance.h... Parsing file /<>/Code/GraphMol/Resonance.h... Preprocessing /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h... Parsing file /<>/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h... Preprocessing /<>/Code/GraphMol/RingInfo.h... Parsing file /<>/Code/GraphMol/RingInfo.h... Preprocessing /<>/Code/GraphMol/Rings.h... Parsing file /<>/Code/GraphMol/Rings.h... Preprocessing /<>/Code/GraphMol/ROMol.h... Parsing file /<>/Code/GraphMol/ROMol.h... Preprocessing /<>/Code/GraphMol/RWMol.h... Parsing file /<>/Code/GraphMol/RWMol.h... Preprocessing /<>/Code/GraphMol/SanitException.h... Parsing file /<>/Code/GraphMol/SanitException.h... Preprocessing /<>/Code/GraphMol/ShapeHelpers/ShapeEncoder.h... Parsing file /<>/Code/GraphMol/ShapeHelpers/ShapeEncoder.h... Preprocessing /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.h... Parsing file /<>/Code/GraphMol/ShapeHelpers/ShapeUtils.h... Preprocessing /<>/Code/GraphMol/SLNParse/SLNAttribs.h... Parsing file /<>/Code/GraphMol/SLNParse/SLNAttribs.h... Preprocessing /<>/Code/GraphMol/SLNParse/SLNParse.h... Parsing file /<>/Code/GraphMol/SLNParse/SLNParse.h... Preprocessing /<>/Code/GraphMol/SLNParse/SLNParseOps.h... Parsing file /<>/Code/GraphMol/SLNParse/SLNParseOps.h... Preprocessing /<>/Code/GraphMol/SmilesParse/primes.h... Parsing file /<>/Code/GraphMol/SmilesParse/primes.h... Preprocessing /<>/Code/GraphMol/SmilesParse/SmartsWrite.h... Parsing file /<>/Code/GraphMol/SmilesParse/SmartsWrite.h... Preprocessing /<>/Code/GraphMol/SmilesParse/SmilesParse.h... Parsing file /<>/Code/GraphMol/SmilesParse/SmilesParse.h... Preprocessing /<>/Code/GraphMol/SmilesParse/SmilesParseOps.h... Parsing file /<>/Code/GraphMol/SmilesParse/SmilesParseOps.h... Preprocessing /<>/Code/GraphMol/SmilesParse/SmilesWrite.h... Parsing file /<>/Code/GraphMol/SmilesParse/SmilesWrite.h... Preprocessing /<>/Code/GraphMol/StereoGroup.h... Parsing file /<>/Code/GraphMol/StereoGroup.h... Preprocessing /<>/Code/GraphMol/StructChecker/Pattern.h... Parsing file /<>/Code/GraphMol/StructChecker/Pattern.h... Preprocessing /<>/Code/GraphMol/StructChecker/ReCharge.h... Parsing file /<>/Code/GraphMol/StructChecker/ReCharge.h... Preprocessing /<>/Code/GraphMol/StructChecker/Stereo.h... Parsing file /<>/Code/GraphMol/StructChecker/Stereo.h... Preprocessing /<>/Code/GraphMol/StructChecker/StripSmallFragments.h... Parsing file /<>/Code/GraphMol/StructChecker/StripSmallFragments.h... Preprocessing /<>/Code/GraphMol/StructChecker/StructChecker.h... Parsing file /<>/Code/GraphMol/StructChecker/StructChecker.h... Preprocessing /<>/Code/GraphMol/StructChecker/StructCheckerOptions.h... Parsing file /<>/Code/GraphMol/StructChecker/StructCheckerOptions.h... Preprocessing /<>/Code/GraphMol/StructChecker/Tautomer.h... Parsing file /<>/Code/GraphMol/StructChecker/Tautomer.h... Preprocessing /<>/Code/GraphMol/StructChecker/Utilites.h... Parsing file /<>/Code/GraphMol/StructChecker/Utilites.h... Preprocessing /<>/Code/GraphMol/Subgraphs/Subgraphs.h... Parsing file /<>/Code/GraphMol/Subgraphs/Subgraphs.h... Preprocessing /<>/Code/GraphMol/Subgraphs/SubgraphUtils.h... Parsing file /<>/Code/GraphMol/Subgraphs/SubgraphUtils.h... Preprocessing /<>/Code/GraphMol/SubstanceGroup.h... Parsing file /<>/Code/GraphMol/SubstanceGroup.h... Preprocessing /<>/Code/GraphMol/Substruct/SubstructMatch.h... Parsing file /<>/Code/GraphMol/Substruct/SubstructMatch.h... Preprocessing /<>/Code/GraphMol/Substruct/SubstructUtils.h... Parsing file /<>/Code/GraphMol/Substruct/SubstructUtils.h... Preprocessing /<>/Code/GraphMol/SubstructLibrary/SubstructLibrary.h... Parsing file /<>/Code/GraphMol/SubstructLibrary/SubstructLibrary.h... Preprocessing /<>/Code/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h... Parsing file /<>/Code/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h... Preprocessing /<>/Code/GraphMol/Trajectory/Snapshot.h... Parsing file /<>/Code/GraphMol/Trajectory/Snapshot.h... Preprocessing /<>/Code/GraphMol/Trajectory/Trajectory.h... Parsing file /<>/Code/GraphMol/Trajectory/Trajectory.h... Preprocessing /<>/Code/Catalogs/Catalog.h... Parsing file /<>/Code/Catalogs/Catalog.h... Preprocessing /<>/Code/Catalogs/CatalogEntry.h... Parsing file /<>/Code/Catalogs/CatalogEntry.h... Preprocessing /<>/Code/Catalogs/CatalogParams.h... Parsing file /<>/Code/Catalogs/CatalogParams.h... Preprocessing /<>/Code/DataStructs/base64.h... Parsing file /<>/Code/DataStructs/base64.h... Preprocessing /<>/Code/DataStructs/BitOps.h... Parsing file /<>/Code/DataStructs/BitOps.h... Preprocessing /<>/Code/DataStructs/BitVect.h... Parsing file /<>/Code/DataStructs/BitVect.h... Preprocessing /<>/Code/DataStructs/BitVects.h... Parsing file /<>/Code/DataStructs/BitVects.h... Preprocessing /<>/Code/DataStructs/BitVectUtils.h... Parsing file /<>/Code/DataStructs/BitVectUtils.h... Preprocessing /<>/Code/DataStructs/DatastructsException.h... Parsing file /<>/Code/DataStructs/DatastructsException.h... Preprocessing /<>/Code/DataStructs/DatastructsStreamOps.h... Parsing file /<>/Code/DataStructs/DatastructsStreamOps.h... Preprocessing /<>/Code/DataStructs/DiscreteDistMat.h... Parsing file /<>/Code/DataStructs/DiscreteDistMat.h... Preprocessing /<>/Code/DataStructs/DiscreteValueVect.h... Parsing file /<>/Code/DataStructs/DiscreteValueVect.h... Preprocessing /<>/Code/DataStructs/ExplicitBitVect.h... Parsing file /<>/Code/DataStructs/ExplicitBitVect.h... Preprocessing /<>/Code/DataStructs/FPBReader.h... Parsing file /<>/Code/DataStructs/FPBReader.h... Preprocessing /<>/Code/DataStructs/MultiFPBReader.h... Parsing file /<>/Code/DataStructs/MultiFPBReader.h... Preprocessing /<>/Code/DataStructs/SparseBitVect.h... Parsing file /<>/Code/DataStructs/SparseBitVect.h... Preprocessing /<>/Code/DataStructs/SparseIntVect.h... Parsing file /<>/Code/DataStructs/SparseIntVect.h... Preprocessing /<>/Code/Query/AndQuery.h... Parsing file /<>/Code/Query/AndQuery.h... Preprocessing /<>/Code/Query/EqualityQuery.h... Parsing file /<>/Code/Query/EqualityQuery.h... Preprocessing /<>/Code/Query/GreaterEqualQuery.h... Parsing file /<>/Code/Query/GreaterEqualQuery.h... Preprocessing /<>/Code/Query/GreaterQuery.h... Parsing file /<>/Code/Query/GreaterQuery.h... Preprocessing /<>/Code/Query/LessEqualQuery.h... Parsing file /<>/Code/Query/LessEqualQuery.h... Preprocessing /<>/Code/Query/LessQuery.h... Parsing file /<>/Code/Query/LessQuery.h... Preprocessing /<>/Code/Query/OrQuery.h... Parsing file /<>/Code/Query/OrQuery.h... Preprocessing /<>/Code/Query/Query.h... Parsing file /<>/Code/Query/Query.h... Preprocessing /<>/Code/Query/QueryObjects.h... Parsing file /<>/Code/Query/QueryObjects.h... Preprocessing /<>/Code/Query/RangeQuery.h... Parsing file /<>/Code/Query/RangeQuery.h... Preprocessing /<>/Code/Query/SetQuery.h... Parsing file /<>/Code/Query/SetQuery.h... Preprocessing /<>/Code/Query/XOrQuery.h... Parsing file /<>/Code/Query/XOrQuery.h... Preprocessing /<>/Code/ML/InfoTheory/CorrMatGenerator.h... Parsing file /<>/Code/ML/InfoTheory/CorrMatGenerator.h... Preprocessing /<>/Code/ML/InfoTheory/InfoBitRanker.h... Parsing file /<>/Code/ML/InfoTheory/InfoBitRanker.h... Preprocessing /<>/Code/ML/InfoTheory/InfoGainFuncs.h... Parsing file /<>/Code/ML/InfoTheory/InfoGainFuncs.h... Preprocessing /<>/Code/DataManip/MetricMatrixCalc/MetricFuncs.h... Parsing file /<>/Code/DataManip/MetricMatrixCalc/MetricFuncs.h... Preprocessing /<>/Code/DataManip/MetricMatrixCalc/MetricMatrixCalc.h... Parsing file /<>/Code/DataManip/MetricMatrixCalc/MetricMatrixCalc.h... Preprocessing /<>/Code/SimDivPickers/DistPicker.h... Parsing file /<>/Code/SimDivPickers/DistPicker.h... Preprocessing /<>/Code/SimDivPickers/HierarchicalClusterPicker.h... Parsing file /<>/Code/SimDivPickers/HierarchicalClusterPicker.h... Preprocessing /<>/Code/SimDivPickers/MaxMinPicker.h... Parsing file /<>/Code/SimDivPickers/MaxMinPicker.h... Preprocessing /<>/Code/RDGeneral/BadFileException.h... Parsing file /<>/Code/RDGeneral/BadFileException.h... Preprocessing /<>/Code/RDGeneral/BoostEndInclude.h... Parsing file /<>/Code/RDGeneral/BoostEndInclude.h... Preprocessing /<>/Code/RDGeneral/BoostStartInclude.h... Parsing file /<>/Code/RDGeneral/BoostStartInclude.h... Preprocessing /<>/Code/RDGeneral/Dict.h... Parsing file /<>/Code/RDGeneral/Dict.h... Preprocessing /<>/Code/RDGeneral/Exceptions.h... Parsing file /<>/Code/RDGeneral/Exceptions.h... Preprocessing /<>/Code/RDGeneral/export.h... Parsing file /<>/Code/RDGeneral/export.h... Preprocessing /<>/Code/RDGeneral/FileParseException.h... Parsing file /<>/Code/RDGeneral/FileParseException.h... Preprocessing /<>/Code/RDGeneral/hanoiSort.h... Parsing file /<>/Code/RDGeneral/hanoiSort.h... Preprocessing /<>/Code/RDGeneral/Invariant.h... Parsing file /<>/Code/RDGeneral/Invariant.h... Preprocessing /<>/Code/RDGeneral/LocaleSwitcher.h... Parsing file /<>/Code/RDGeneral/LocaleSwitcher.h... Preprocessing /<>/Code/RDGeneral/Ranking.h... Parsing file /<>/Code/RDGeneral/Ranking.h... Preprocessing /<>/Code/RDGeneral/RDAny.h... Parsing file /<>/Code/RDGeneral/RDAny.h... Preprocessing /<>/Code/RDGeneral/RDConfig.h... Parsing file /<>/Code/RDGeneral/RDConfig.h... Preprocessing /<>/Code/RDGeneral/RDLog.h... Parsing file /<>/Code/RDGeneral/RDLog.h... Preprocessing /<>/Code/RDGeneral/RDProps.h... Parsing file /<>/Code/RDGeneral/RDProps.h... Preprocessing /<>/Code/RDGeneral/RDThreads.h... Parsing file /<>/Code/RDGeneral/RDThreads.h... Preprocessing /<>/Code/RDGeneral/RDValue-doublemagic.h... Parsing file /<>/Code/RDGeneral/RDValue-doublemagic.h... Preprocessing /<>/Code/RDGeneral/RDValue-taggedunion.h... Parsing file /<>/Code/RDGeneral/RDValue-taggedunion.h... Preprocessing /<>/Code/RDGeneral/RDValue.h... Parsing file /<>/Code/RDGeneral/RDValue.h... Preprocessing /<>/Code/RDGeneral/StreamOps.h... Parsing file /<>/Code/RDGeneral/StreamOps.h... Preprocessing /<>/Code/RDGeneral/types.h... Parsing file /<>/Code/RDGeneral/types.h... Preprocessing /<>/Code/RDGeneral/utils.h... Parsing file /<>/Code/RDGeneral/utils.h... Preprocessing /<>/Code/RDGeneral/versions.h... Parsing file /<>/Code/RDGeneral/versions.h... Preprocessing /<>/Code/RDBoost/boost_numpy.h... Parsing file /<>/Code/RDBoost/boost_numpy.h... Preprocessing /<>/Code/RDBoost/import_array.h... Parsing file /<>/Code/RDBoost/import_array.h... Preprocessing /<>/Code/RDBoost/iterator_next.h... Parsing file /<>/Code/RDBoost/iterator_next.h... Preprocessing /<>/Code/RDBoost/pyint_api.h... Parsing file /<>/Code/RDBoost/pyint_api.h... Preprocessing /<>/Code/RDBoost/PySequenceHolder.h... Parsing file /<>/Code/RDBoost/PySequenceHolder.h... Preprocessing /<>/Code/RDBoost/python.h... Parsing file /<>/Code/RDBoost/python.h... Preprocessing /<>/Code/RDBoost/python_streambuf.h... Parsing file /<>/Code/RDBoost/python_streambuf.h... Preprocessing /<>/Code/DistGeom/BoundsMatrix.h... Parsing file /<>/Code/DistGeom/BoundsMatrix.h... Preprocessing /<>/Code/DistGeom/ChiralSet.h... Parsing file /<>/Code/DistGeom/ChiralSet.h... Preprocessing /<>/Code/DistGeom/ChiralViolationContrib.h... Parsing file /<>/Code/DistGeom/ChiralViolationContrib.h... Preprocessing /<>/Code/DistGeom/DistGeomUtils.h... Parsing file /<>/Code/DistGeom/DistGeomUtils.h... Preprocessing /<>/Code/DistGeom/DistViolationContrib.h... Parsing file /<>/Code/DistGeom/DistViolationContrib.h... Preprocessing /<>/Code/DistGeom/FourthDimContrib.h... Parsing file /<>/Code/DistGeom/FourthDimContrib.h... Preprocessing /<>/Code/DistGeom/TriangleSmooth.h... Parsing file /<>/Code/DistGeom/TriangleSmooth.h... Preprocessing /<>/Code/ForceField/Contrib.h... Parsing file /<>/Code/ForceField/Contrib.h... Preprocessing /<>/Code/ForceField/ForceField.h... Parsing file /<>/Code/ForceField/ForceField.h... Preprocessing /<>/Code/ForceField/MMFF/AngleBend.h... Parsing file /<>/Code/ForceField/MMFF/AngleBend.h... Preprocessing /<>/Code/ForceField/MMFF/AngleConstraint.h... Parsing file /<>/Code/ForceField/MMFF/AngleConstraint.h... Preprocessing /<>/Code/ForceField/MMFF/BondStretch.h... Parsing file /<>/Code/ForceField/MMFF/BondStretch.h... Preprocessing /<>/Code/ForceField/MMFF/Contribs.h... Parsing file /<>/Code/ForceField/MMFF/Contribs.h... Preprocessing /<>/Code/ForceField/MMFF/DistanceConstraint.h... Parsing file /<>/Code/ForceField/MMFF/DistanceConstraint.h... Preprocessing /<>/Code/ForceField/MMFF/Nonbonded.h... Parsing file /<>/Code/ForceField/MMFF/Nonbonded.h... Preprocessing /<>/Code/ForceField/MMFF/OopBend.h... Parsing file /<>/Code/ForceField/MMFF/OopBend.h... Preprocessing /<>/Code/ForceField/MMFF/Params.h... Parsing file /<>/Code/ForceField/MMFF/Params.h... Preprocessing /<>/Code/ForceField/MMFF/PositionConstraint.h... Parsing file /<>/Code/ForceField/MMFF/PositionConstraint.h... Preprocessing /<>/Code/ForceField/MMFF/StretchBend.h... Parsing file /<>/Code/ForceField/MMFF/StretchBend.h... Preprocessing /<>/Code/ForceField/MMFF/TorsionAngle.h... Parsing file /<>/Code/ForceField/MMFF/TorsionAngle.h... Preprocessing /<>/Code/ForceField/MMFF/TorsionConstraint.h... Parsing file /<>/Code/ForceField/MMFF/TorsionConstraint.h... Preprocessing /<>/Code/ForceField/UFF/AngleBend.h... Parsing file /<>/Code/ForceField/UFF/AngleBend.h... Preprocessing /<>/Code/ForceField/UFF/AngleConstraint.h... Parsing file /<>/Code/ForceField/UFF/AngleConstraint.h... Preprocessing /<>/Code/ForceField/UFF/BondStretch.h... Parsing file /<>/Code/ForceField/UFF/BondStretch.h... Preprocessing /<>/Code/ForceField/UFF/Contribs.h... Parsing file /<>/Code/ForceField/UFF/Contribs.h... Preprocessing /<>/Code/ForceField/UFF/DistanceConstraint.h... Parsing file /<>/Code/ForceField/UFF/DistanceConstraint.h... Preprocessing /<>/Code/ForceField/UFF/Inversion.h... Parsing file /<>/Code/ForceField/UFF/Inversion.h... Preprocessing /<>/Code/ForceField/UFF/Nonbonded.h... Parsing file /<>/Code/ForceField/UFF/Nonbonded.h... Preprocessing /<>/Code/ForceField/UFF/Params.h... Parsing file /<>/Code/ForceField/UFF/Params.h... Preprocessing /<>/Code/ForceField/UFF/PositionConstraint.h... Parsing file /<>/Code/ForceField/UFF/PositionConstraint.h... Preprocessing /<>/Code/ForceField/UFF/TorsionAngle.h... Parsing file /<>/Code/ForceField/UFF/TorsionAngle.h... Preprocessing /<>/Code/ForceField/UFF/TorsionConstraint.h... Parsing file /<>/Code/ForceField/UFF/TorsionConstraint.h... Preprocessing /<>/Code/Numerics/Alignment/AlignPoints.h... Parsing file /<>/Code/Numerics/Alignment/AlignPoints.h... Preprocessing /<>/Code/Numerics/EigenSolvers/PowerEigenSolver.h... Parsing file /<>/Code/Numerics/EigenSolvers/PowerEigenSolver.h... Preprocessing /<>/Code/Numerics/Matrix.h... Parsing file /<>/Code/Numerics/Matrix.h... Preprocessing /<>/Code/Numerics/Optimizer/BFGSOpt.h... Parsing file /<>/Code/Numerics/Optimizer/BFGSOpt.h... Preprocessing /<>/Code/Numerics/SquareMatrix.h... Parsing file /<>/Code/Numerics/SquareMatrix.h... Preprocessing /<>/Code/Numerics/SymmMatrix.h... Parsing file /<>/Code/Numerics/SymmMatrix.h... Preprocessing /<>/Code/Numerics/Vector.h... Parsing file /<>/Code/Numerics/Vector.h... Preprocessing /<>/Code/Geometry/Grid3D.h... Parsing file /<>/Code/Geometry/Grid3D.h... Preprocessing /build/rd/<>/Code/ForceField/MMFF/Contribs.h:15: warning: the name `Contribs.h' supplied as the second argument in the \file statement matches the following input files: /<>/Code/ForceField/MMFF/Contribs.h /<>/Code/ForceField/UFF/Contribs.h Please use a more specific name by including a (larger) part of the path! /<>/Code/ForceField/UFF/Contribs.h:13: warning: the name `Contribs.h' supplied as the second argument in the \file statement matches the following input files: /<>/Code/ForceField/MMFF/Contribs.h /<>/Code/ForceField/UFF/Contribs.h Please use a more specific name by including a (larger) part of the path! /<>/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h:66: warning: documented symbol `for experimental torsion angle RDKit::DGeomHelpers::preferences' was not declared or defined. kit-aDOYte/rdkit-201903.1/Code/Geometry/GridUtils.h... Parsing file /<>/Code/Geometry/GridUtils.h... Preprocessing /<>/Code/Geometry/point.h... Parsing file /<>/Code/Geometry/point.h... Preprocessing /<>/Code/Geometry/Transform.h... Parsing file /<>/Code/Geometry/Transform.h... Preprocessing /<>/Code/Geometry/Transform2D.h... Parsing file /<>/Code/Geometry/Transform2D.h... Preprocessing /<>/Code/Geometry/Transform3D.h... Parsing file /<>/Code/Geometry/Transform3D.h... Preprocessing /<>/Code/Geometry/UniformGrid3D.h... Parsing file /<>/Code/Geometry/UniformGrid3D.h... Preprocessing /<>/Code/Geometry/Utils.h... Parsing file /<>/Code/Geometry/Utils.h... Preprocessing /<>/Code/Features/Feature.h... Parsing file /<>/Code/Features/Feature.h... Preprocessing /<>/Code/ChemicalFeatures/ChemicalFeature.h... Parsing file /<>/Code/ChemicalFeatures/ChemicalFeature.h... Preprocessing /<>/Code/ChemicalFeatures/FreeChemicalFeature.h... Parsing file /<>/Code/ChemicalFeatures/FreeChemicalFeature.h... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Associating documentation with classes... Computing nesting relations for classes... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Sorting lists... Freeing entry tree Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Computing dependencies between directories... Generating citations page... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Generating style sheet... Generating search indices... Generating example documentation... Generating file sources... Generating code for file AcidBaseCatalogEntry.h... Generating code for file AcidBaseCatalogParams.h... Generating code for file AcidBaseCatalogUtils.h... Generating code for file AlignMolecules.h... Generating code for file AlignPoints.h... Generating code for file AndQuery.h... Generating code for file AngleBend.h... Generating code for file AngleBend.h... Generating code for file AngleConstraint.h... Generating code for file AngleConstraint.h... Generating code for file Atom.h... Generating code for file atomic_data.h... Generating code for file AtomIterators.h... Generating code for file AtomPairGenerator.h... Generating code for file AtomPairs.h... Generating code for file AtomTyper.h... Generating code for file AtomTyper.h... Generating code for file AUTOCORR2D.h... Generating code for file AUTOCORR3D.h... Generating code for file BadFileException.h... Generating code for file base64.h... Generating code for file BFGSOpt.h... Generating code for file BitOps.h... Generating code for file BitVect.h... Generating code for file BitVects.h... Generating code for file BitVectUtils.h... Generating code for file Bond.h... Generating code for file BondIterators.h... Generating code for file BondStretch.h... Generating code for file BondStretch.h... Generating code for file boost_numpy.h... Generating code for file BoostEndInclude.h... Generating code for file BoostStartInclude.h... Generating code for file BoundsMatrix.h... Generating code for file BoundsMatrixBuilder.h... Generating code for file Builder.h... Generating code for file Builder.h... Generating code for file Canon.h... Generating code for file CartesianProduct.h... Generating code for file Catalog.h... Generating code for file CatalogEntry.h... Generating code for file CatalogParams.h... Generating code for file Charge.h... Generating code for file ChemicalFeature.h... Generating code for file ChemTransforms.h... Generating code for file Chirality.h... Generating code for file ChiralSet.h... Generating code for file ChiralViolationContrib.h... Generating code for file Composition2N.h... Generating code for file Conformer.h... Generating code for file ConnectivityDescriptors.h... Generating code for file Contrib.h... Generating code for file Contribs.h... Generating code for file Contribs.h... Generating code for file CorrMatGenerator.h... Generating code for file Crippen.h... Generating code for file Data3Ddescriptors.h... Generating code for file DatastructsException.h... Generating code for file DatastructsStreamOps.h... Generating code for file DebugTrace.h... Generating code for file DepictUtils.h... Generating code for file details.h... Generating code for file details.h... Generating code for file Dict.h... Generating code for file DiscreteDistMat.h... Generating code for file DiscreteValueVect.h... Generating code for file DistanceConstraint.h... Generating code for file DistanceConstraint.h... Generating code for file DistGeomUtils.h... Generating code for file DistPicker.h... Generating code for file DistViolationContrib.h... Generating code for file DuplicatedSeedCache.h... Generating code for file EEM.h... Generating code for file EmbeddedFrag.h... Generating code for file Embedder.h... Generating code for file Enumerate.h... Generating code for file EnumerateBase.h... Generating code for file EnumerateTypes.h... Generating code for file EnumerationPickler.h... Generating code for file EnumerationStrategyBase.h... Generating code for file EqualityQuery.h... Generating code for file EvenSamplePairs.h... Generating code for file Exceptions.h... Generating code for file ExplicitBitVect.h... Generating code for file export.h... Generating code for file Feature.h... Generating code for file FeatureParser.h... Generating code for file FileParseException.h... Generating code for file FileParsers.h... Generating code for file FileParserUtils.h... Generating code for file FilterCatalog.h... Generating code for file FilterCatalogEntry.h... Generating code for file FilterMatcherBase.h... Generating code for file FilterMatchers.h... Generating code for file Filters.h... Generating code for file FingerprintGenerator.h... Generating code for file Fingerprints.h... Generating code for file FingerprintUtil.h... Generating code for file FMCS.h... Generating code for file ForceField.h... Generating code for file FourthDimContrib.h... Generating code for file FPBReader.h... Generating code for file FragCatalogEntry.h... Generating code for file FragCatalogUtils.h... Generating code for file FragCatGenerator.h... Generating code for file FragCatParams.h... Generating code for file FragFPGenerator.h... Generating code for file Fragment.h... Generating code for file FragmentCatalogEntry.h... Generating code for file FragmentCatalogParams.h... Generating code for file FragmentCatalogUtils.h... Generating code for file FreeChemicalFeature.h... Generating code for file FunctionalGroupHierarchy.h... Generating code for file GasteigerCharges.h... Generating code for file GasteigerParams.h... Generating code for file GETAWAY.h... Generating code for file Graph.h... Generating code for file GraphMol.h... Generating code for file GreaterEqualQuery.h... Generating code for file GreaterQuery.h... Generating code for file Grid3D.h... Generating code for file GridUtils.h... Generating code for file hanoiSort.h... Generating code for file HierarchicalClusterPicker.h... Generating code for file import_array.h... Generating code for file InfoBitRanker.h... Generating code for file InfoGainFuncs.h... Generating code for file Invariant.h... Generating code for file Inversion.h... Generating code for file iterator_next.h... Generating code for file LessEqualQuery.h... Generating code for file LessQuery.h... Generating code for file Lipinski.h... Generating code for file LocaleSwitcher.h... Generating code for file MACCS.h... Generating code for file MatchTable.h... Generating code for file Matrix.h... Generating code for file MaximumCommonSubgraph.h... Generating code for file MaxMinPicker.h... Generating code for file Metal.h... Generating code for file MetricFuncs.h... Generating code for file MetricMatrixCalc.h... Generating code for file MMFF.h... Generating code for file MMPA.h... Generating code for file MolBundle.h... Generating code for file MolCatalog.h... Generating code for file MolCatalogEntry.h... Generating code for file MolCatalogParams.h... Generating code for file MolChemicalFeature.h... Generating code for file MolChemicalFeatureDef.h... Generating code for file MolChemicalFeatureFactory.h... Generating code for file MolData3Ddescriptors.h... Generating code for file MolDescriptors.h... Generating code for file MolDescriptors3D.h... Generating code for file MolDraw2D.h... Generating code for file MolDraw2DCairo.h... Generating code for file MolDraw2DDetails.h... Generating code for file MolDraw2DQt.h... Generating code for file MolDraw2DSVG.h... Generating code for file MolDraw2DUtils.h... Generating code for file MolDraw2Dwx.h... Generating code for file MolFileStereochem.h... Generating code for file MolFragmenter.h... Generating code for file MolHash.h... Generating code for file MolInterchange.h... Generating code for file MolOps.h... Generating code for file MolPickler.h... Generating code for file MolSGroupParsing.h... Generating code for file MolSGroupWriting.h... Generating code for file MolStandardize.h... Generating code for file MolSupplier.h... Generating code for file MolSurf.h... Generating code for file MolTransforms.h... Generating code for file MolWriters.h... Generating code for file MonomerInfo.h... Generating code for file MorganFingerprints.h... Generating code for file MorganGenerator.h... Generating code for file MORSE.h... Generating code for file MQN.h... Generating code for file MultiFPBReader.h... Generating code for file MultiMolDraw2D.h... Generating code for file new_canon.h... Generating code for file Nonbonded.h... Generating code for file Nonbonded.h... Generating code for file Normalize.h... Generating code for file O3AAlignMolecules.h... Generating code for file OopBend.h... Generating code for file OrQuery.h... Generating code for file Params.h... Generating code for file Params.h... Generating code for file Pattern.h... Generating code for file PBF.h... Generating code for file PeriodicTable.h... Generating code for file PMI.h... Generating code for file point.h... Generating code for file PositionConstraint.h... Generating code for file PositionConstraint.h... Generating code for file PowerEigenSolver.h... Generating code for file PreprocessRxn.h... Generating code for file primes.h... Generating code for file Property.h... Generating code for file ProximityBonds.h... Generating code for file pyint_api.h... Generating code for file PySequenceHolder.h... Generating code for file python.h... Generating code for file python_streambuf.h... Generating code for file Query.h... Generating code for file QueryAtom.h... Generating code for file QueryBond.h... Generating code for file QueryObjects.h... Generating code for file QueryOps.h... Generating code for file RandomSample.h... Generating code for file RandomSampleAllBBs.h... Generating code for file RangeQuery.h... Generating code for file Ranking.h... Generating code for file RDAny.h... Generating code for file RDConfig.h... Generating code for file RDDepictor.h... Generating code for file RDF.h... Generating code for file RDKitBase.h... Generating code for file RDKitFPGenerator.h... Generating code for file RDKitQueries.h... Generating code for file RDLog.h... Generating code for file RDProps.h... Generating code for file RDThreads.h... Generating code for file RDValue-doublemagic.h... Generating code for file RDValue-taggedunion.h... Generating code for file RDValue.h... Generating code for file Reaction.h... Generating code for file ReactionFingerprints.h... Generating code for file ReactionParser.h... Generating code for file ReactionPickler.h... Generating code for file ReactionRunner.h... Generating code for file ReactionUtils.h... Generating code for file ReCharge.h... Generating code for file ReducedGraphs.h... Generating code for file RegisterDescriptor.h... Generating code for file Resonance.h... Generating code for file RGroupDecomp.h... Generating code for file RingInfo.h... Generating code for file RingMatchTableSet.h... Generating code for file Rings.h... Generating code for file ROMol.h... Generating code for file RWMol.h... Generating code for file SanitException.h... Generating code for file SanitizeRxn.h... Generating code for file Seed.h... Generating code for file SeedSet.h... Generating code for file SequenceParsers.h... Generating code for file SequenceWriters.h... Generating code for file SetQuery.h... Generating code for file ShapeEncoder.h... Generating code for file ShapeUtils.h... Generating code for file SLNAttribs.h... Generating code for file SLNParse.h... Generating code for file SLNParseOps.h... Generating code for file SmartsWrite.h... Generating code for file SmilesParse.h... Generating code for file SmilesParseOps.h... Generating code for file SmilesWrite.h... Generating code for file Snapshot.h... Generating code for file SparseBitVect.h... Generating code for file SparseIntVect.h... Generating code for file SquareMatrix.h... Generating code for file Stereo.h... Generating code for file StereoGroup.h... Generating code for file StreamOps.h... Generating code for file StretchBend.h... Generating code for file StripSmallFragments.h... Generating code for file StructChecker.h... Generating code for file StructCheckerOptions.h... Generating code for file Subgraphs.h... Generating code for file SubgraphUtils.h... Generating code for file SubstanceGroup.h... Generating code for file SubstructLibrary.h... Generating code for file SubstructLibrarySerialization.h... Generating code for file SubstructMatch.h... Generating code for file SubstructMatchCustom.h... Generating code for file SubstructureCache.h... Generating code for file SubstructUtils.h... Generating code for file SymmMatrix.h... Generating code for file Target.h... Generating code for file TargetMatch.h... Generating code for file Tautomer.h... Generating code for file Tautomer.h... Generating code for file TautomerCatalogEntry.h... Generating code for file TautomerCatalogParams.h... Generating code for file TautomerCatalogUtils.h... Generating code for file TopologicalTorsionGenerator.h... Generating code for file TorsionAngle.h... Generating code for file TorsionAngle.h... Generating code for file TorsionAngleM6.h... Generating code for file TorsionConstraint.h... Generating code for file TorsionConstraint.h... Generating code for file TorsionPreferences.h... Generating code for file Trajectory.h... Generating code for file Transform.h... Generating code for file Transform2D.h... Generating code for file Transform3D.h... Generating code for file TransformCatalogEntry.h... Generating code for file TransformCatalogParams.h... Generating code for file TransformCatalogUtils.h... Generating code for file TriangleSmooth.h... Genera/<>/Code/DataStructs/BitOps.h:174: warning: found at different nesting level (7) than expected (4) /<>/Code/DataStructs/BitOps.h:175: warning: end of comment block while expecting command ting code for file types.h... Generating code for file UFF.h... Generating code for file UniformGrid3D.h... Generating code for file USRDescriptor.h... Generating code for file Utilites.h... Generating code for file Utils.h... Generating code for file utils.h... Generating code for file Validate.h... Generating code for file Vector.h... Generating code for file versions.h... Generating code for file WHIM.h... Generating code for file XOrQuery.h... Generating file documentation... Generating docs for file AcidBaseCatalogEntry.h... Generating docs for file AcidBaseCatalogParams.h... Generating docs for file AcidBaseCatalogUtils.h... Generating docs for file AlignMolecules.h... Generating docs for file AlignPoints.h... Generating docs for file AndQuery.h... Generating docs for file AngleBend.h... Generating docs for file AngleBend.h... Generating docs for file AngleConstraint.h... Generating docs for file AngleConstraint.h... Generating docs for file Atom.h... Generating docs for file atomic_data.h... Generating docs for file AtomIterators.h... Generating docs for file AtomPairGenerator.h... Generating docs for file AtomPairs.h... Generating docs for file AtomTyper.h... Generating docs for file AtomTyper.h... Generating docs for file AUTOCORR2D.h... Generating docs for file AUTOCORR3D.h... Generating docs for file BadFileException.h... Generating docs for file base64.h... Generating docs for file BFGSOpt.h... Generating docs for file BitOps.h... Generating docs for file BitVect.h... Generating docs for file BitVects.h... Generating docs for file BitVectUtils.h... Generating docs for file Bond.h... Generating docs for file BondIterators.h... Generating docs for file BondStretch.h... Generating docs for file BondStretch.h... Generating docs for file boost_numpy.h... Generating docs for file BoostEndInclude.h... Generating docs for file BoostStartInclude.h... Generating docs for file BoundsMatrix.h... Generating docs for file BoundsMatrixBuilder.h... Generating docs for file Builder.h... Generating docs for file Builder.h... Generating docs for file Canon.h... Generating docs for file CartesianProduct.h... Generating docs for file Catalog.h... Generating docs for file CatalogEntry.h... Generating docs for file CatalogParams.h... Generating docs for file Charge.h... Generating docs for file ChemicalFeature.h... Generating docs for file ChemTransforms.h... Generating docs for file Chirality.h... Generating docs for file ChiralSet.h... Generating docs for file ChiralViolationContrib.h... Generating docs for file Composition2N.h... Generating docs for file Conformer.h... Generating docs for file ConnectivityDescriptors.h... Generating docs for file Contrib.h... Generating docs for file Contribs.h... Generating docs for file Contribs.h... Generating docs for file CorrMatGenerator.h... Generating docs for file Crippen.h... Generating docs for file Data3Ddescriptors.h... Generating docs for file DatastructsException.h... Generating docs for file DatastructsStreamOps.h... Generating docs for file DebugTrace.h... Generating docs for file DepictUtils.h... Generating docs for file details.h... Generating docs for file details.h... Generating docs for file Dict.h... Generating docs for file DiscreteDistMat.h... Generating docs for file DiscreteValueVect.h... Generating docs for file DistanceConstraint.h... Generating docs for file DistanceConstraint.h... Generating docs for file DistGeomUtils.h... Generating docs for file DistPicker.h... Generating docs for file DistViolationContrib.h... Generating docs for file DuplicatedSeedCache.h... Generating docs for file EEM.h... Generating docs for file EmbeddedFrag.h... Generating docs for file Embedder.h... Generating docs for file Enumerate.h... Generating docs for file EnumerateBase.h... Generating docs for file EnumerateTypes.h... Generating docs for file EnumerationPickler.h... Generating docs for file EnumerationStrategyBase.h... Generating docs for file EqualityQuery.h... Generating docs for file EvenSamplePairs.h... Generating docs for file Exceptions.h... Generating docs for file ExplicitBitVect.h... Generating docs for file export.h... Generating docs for file Feature.h... Generating docs for file FeatureParser.h... Generating docs for file FileParseException.h... Generating docs for file FileParsers.h... Generating docs for file FileParserUtils.h... Generating docs for file FilterCatalog.h... Generating docs for file FilterCatalogEntry.h... Generating docs for file FilterMatcherBase.h... Generating docs for file FilterMatchers.h... Generating docs for file Filters.h... Generating docs for file FingerprintGenerator.h... Generating docs for file Fingerprints.h... Generating docs for file FingerprintUtil.h... Generating docs for file FMCS.h... Generating docs for file ForceField.h... Generating docs for file FourthDimContrib.h... Generating docs for file FPBReader.h... Generating docs for file FragCatalogEntry.h... Generating docs for file FragCatalogUtils.h... Generating docs for file FragCatGenerator.h... Generating docs for file FragCatParams.h... Generating docs for file FragFPGenerator.h... Generating docs for file Fragment.h... Generating docs for file FragmentCatalogEntry.h... Generating docs for file FragmentCatalogParams.h... Generating docs for file FragmentCatalogUtils.h... Generating docs for file FreeChemicalFeature.h... Generating docs for file FunctionalGroupHierarchy.h... Generating docs for file GasteigerCharges.h... Generating docs for file GasteigerParams.h... Generating docs for file GETAWAY.h... Generating docs for file Graph.h... Generating docs for file GraphMol.h... Generating docs for file GreaterEqualQuery.h... Generating docs for file GreaterQuery.h... Generating docs for file Grid3D.h... Generating docs for file GridUtils.h... Generating docs for file hanoiSort.h... Generating docs for file HierarchicalClusterPicker.h... Generating docs for file import_array.h... Generating docs for file InfoBitRanker.h... Generating docs for file InfoGainFuncs.h... Generating docs for file Invariant.h... Generating docs for file Inversion.h... Generating docs for file iterator_next.h... Generating docs for file LessEqualQuery.h... Generating docs for file LessQuery.h... Generating docs for file Lipinski.h... Generating docs for file LocaleSwitcher.h... Generating docs for file MACCS.h... Generating docs for file MatchTable.h... Generating docs for file Matrix.h... Generating docs for file MaximumCommonSubgraph.h... Generating docs for file MaxMinPicker.h... Generating docs for file Metal.h... Generating docs for file MetricFuncs.h... Generating docs for file MetricMatrixCalc.h... Generating docs for file MMFF.h... Generating docs for file MMPA.h... Generating docs for file MolBundle.h... Generating docs for file MolCatalog.h... Generating docs for file MolCatalogEntry.h... Generating docs for file MolCatalogParams.h... Generating docs for file MolChemicalFeature.h... Generating docs for file MolChemicalFeatureDef.h... Generating docs for file MolChemicalFeatureFactory.h... Generating docs for file MolData3Ddescriptors.h... Generating docs for file MolDescriptors.h... Generating docs for file MolDescriptors3D.h... Generating docs for file MolDraw2D.h... Generating docs for file MolDraw2DCairo.h... Generating docs for file MolDraw2DDetails.h... Generating docs for file MolDraw2DQt.h... Generating docs for file MolDraw2DSVG.h... Generating docs for file MolDraw2DUtils.h... Generating docs for file MolDraw2Dwx.h... Generating docs for file MolFileStereochem.h... Generating docs for file MolFragmenter.h... Generating docs for file MolHash.h... Generating docs for file MolInterchange.h... Generating docs for file MolOps.h... Generating docs for file MolPickler.h... Generating docs for file MolSGroupParsing.h... Generating docs for file MolSGroupWriting.h... Generating docs for file MolStandardize.h... Generating docs for file MolSupplier.h... Generating docs for file MolSurf.h... Generating docs for file MolTransforms.h... Generating docs for file MolWriters.h... Generating docs for file MonomerInfo.h... Generating docs for file MorganFingerprints.h... Generating docs for file MorganGenerator.h... /<>/Code/GraphMol/QueryOps.h:487: warning: Found unknown command `\overloadquery' /<>/Code/GraphMol/QueryOps.h:496: warning: Found unknown command `\overloadquery' Generating docs for file MORSE.h... Generating docs for file MQN.h... Generating docs for file MultiFPBReader.h... Generating docs for file MultiMolDraw2D.h... Generating docs for file new_canon.h... Generating docs for file Nonbonded.h... Generating docs for file Nonbonded.h... Generating docs for file Normalize.h... Generating docs for file O3AAlignMolecules.h... Generating docs for file OopBend.h... Generating docs for file OrQuery.h... Generating docs for file Params.h... Generating docs for file Params.h... Generating docs for file Pattern.h... Generating docs for file PBF.h... Generating docs for file PeriodicTable.h... Generating docs for file PMI.h... Generating docs for file point.h... Generating docs for file PositionConstraint.h... Generating docs for file PositionConstraint.h... Generating docs for file PowerEigenSolver.h... Generating docs for file PreprocessRxn.h... Generating docs for file primes.h... Generating docs for file Property.h... Generating docs for file ProximityBonds.h... Generating docs for file pyint_api.h... Generating docs for file PySequenceHolder.h... Generating docs for file python.h... Generating docs for file python_streambuf.h... Generating docs for file Query.h... Generating docs for file QueryAtom.h... Generating docs for file QueryBond.h... Generating docs for file QueryObjects.h... Generating docs for file QueryOps.h... Generating docs for file RandomSample.h... Generating docs for file RandomSampleAllBBs.h... Generating docs for file RangeQuery.h... Generating docs for file Ranking.h... Generating docs for file RDAny.h... Generating docs for file RDConfig.h... Generating docs for file RDDepictor.h... Generating docs for file RDF.h... Generating docs for file RDKitBase.h... Generating docs for file RDKitFPGenerator.h... Generating docs for file RDKitQueries.h... Generating docs for file RDLog.h... Generating docs for file RDProps.h... Generating docs for file RDThreads.h... Generating docs for file RDValue-doublemagic.h... Generating docs for file RDValue-taggedunion.h... Generating docs for file RDValue.h... Generating docs for file Reaction.h... Generating docs for file ReactionFingerprints.h... Generating docs for file ReactionParser.h... Generating docs for file ReactionPickler.h... Generating docs for file ReactionRunner.h... Generating docs for file ReactionUtils.h... Generating docs for file ReCharge.h... Generating docs for file ReducedGraphs.h... Generating docs for file RegisterDescriptor.h... Generating docs for file Resonance.h... Generating docs for file RGroupDecomp.h... Generating docs for file RingInfo.h... Generating docs for file RingMatchTableSet.h... Generating docs for file Rings.h... Generating docs for file ROMol.h... Generating docs for file RWMol.h... Generating docs for file SanitException.h... Generating docs for file SanitizeRxn.h... Generating docs for file Seed.h... Generating docs for file SeedSet.h... Generating docs for file SequenceParsers.h... Generating docs for file SequenceWriters.h... Generating docs for file SetQuery.h... Generating docs for file ShapeEncoder.h... Generating docs for file ShapeUtils.h... Generating docs for file SLNAttribs.h... Generating docs for file SLNParse.h... Generating docs for file SLNParseOps.h... Generating docs for file SmartsWrite.h... Generating docs for file SmilesParse.h... Generating docs for file SmilesParseOps.h... Generating docs for file SmilesWrite.h... Generating docs for file Snapshot.h... Generating docs for file SparseBitVect.h... Generating docs for file SparseIntVect.h... Generating docs for file SquareMatrix.h... Generating docs for file Stereo.h... Generating docs for file StereoGroup.h... Generating docs for file StreamOps.h... Generating docs for file StretchBend.h... Generating docs for file StripSmallFragments.h... Generating docs for file StructChecker.h... Generating docs for file StructCheckerOptions.h... Generating docs for file Subgraphs.h... Generating docs for file SubgraphUtils.h... Generating docs for file SubstanceGroup.h... Generating docs for file SubstructLibrary.h... Generating/<>/Code/DistGeom/DistGeomUtils.h:118: warning: The following parameters of DistGeom::constructForceField(const BoundsMatrix &mmat, RDGeom::PointPtrVect &positions, const VECT_CHIRALSET &csets, double weightChiral=1.0, double weightFourthDim=0.1, std::map< std::pair< int, int >, double > *extraWeights=0, double basinSizeTol=5.0, boost::dynamic_bitset<> *fixedPts=nullptr) are not documented: parameter 'fixedPts' /<>/Code/ForceField/ForceField.h:133: warning: The following parameters of ForceFields::ForceField::minimize(unsigned int snapshotFreq, RDKit::SnapshotVect *snapshotVect, unsigned int maxIts=200, double forceTol=1e-4, double energyTol=1e-6) are not documented: parameter 'snapshotFreq' parameter 'snapshotVect' /<>/Code/ForceField/ForceField.h:139: warning: argument 'snapshotFreq' of command @param is not found in the argument list of ForceFields::ForceField::minimize(unsigned int maxIts=200, double forceTol=1e-4, double energyTol=1e-6) /<>/Code/ForceField/ForceField.h:139: warning: argument 'snapshotVect' of command @param is not found in the argument list of ForceFields::ForceField::minimize(unsigned int maxIts=200, double forceTol=1e-4, double energyTol=1e-6) /<>/Code/ForceField/MMFF/AngleBend.h:31: warning: argument 'angleType' of command @param is not found in the argument list of ForceFields::MMFF::AngleBendContrib::AngleBendContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, const MMFFAngle *mmffAngleParams, const MMFFProp *mmffPropParamsCentralAtom) /<>/Code/ForceField/MMFF/AngleBend.h:40: warning: The following parameters of ForceFields::MMFF::AngleBendContrib::AngleBendContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, const MMFFAngle *mmffAngleParams, const MMFFProp *mmffPropParamsCentralAtom) are not documented: parameter 'mmffAngleParams' parameter 'mmffPropParamsCentralAtom' /<>/Code/ForceField/MMFF/AngleConstraint.h:27: warning: argument 'minAngle' of command @param is not found in the argument list of ForceFields::MMFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /<>/Code/ForceField/MMFF/AngleConstraint.h:27: warning: argument 'maxAngle' of command @param is not found in the argument list of ForceFields::MMFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /<>/Code/ForceField/MMFF/AngleConstraint.h:36: warning: The following parameters of ForceFields::MMFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) are not documented: parameter 'minAngleDeg' parameter 'maxAngleDeg' docs for file SubstructLibrarySerialization.h... Generating docs for file SubstructMatch.h... Generating docs for file SubstructMatchCustom.h... Generating docs for file SubstructureCache.h... Generating docs for file SubstructUtils.h... Generating docs for file SymmMatrix.h... Generating docs for file Target.h... Generating docs for file TargetMatch.h... Generating docs for file Tautomer.h... Generating docs for file Tautomer.h... Generating docs for file TautomerCatalogEntry.h... Generating docs for file TautomerCatalogParams.h... Generating docs for file TautomerCatalogUtils.h... Generating docs for file TopologicalTorsionGenerator.h... Generating docs for file TorsionAngle.h... Generating docs for file TorsionAngle.h... Generating docs for file TorsionAngleM6.h... Generating docs for file TorsionConstraint.h... Generating docs for file TorsionConstraint.h... Generating docs for file TorsionPreferences.h... Generating docs for file Trajectory.h... Generating docs for file Transform.h... Generating docs for file Transform2D.h... Generating docs for file Transform3D.h... Generating docs for file TransformCatalogEntry.h... Generating docs for file TransformCatalogParams.h... Generating docs for file TransformCatalogUtils.h... Generating docs for file TriangleSmooth.h... Generating docs for file types.h... Generating docs for file UFF.h... Generating docs for file UniformGrid3D.h... Generating docs for file USRDescriptor.h... Generating docs for file Utilites.h... Generating docs for file Utils.h... Generating docs for file utils.h... Generating docs for file Validate.h... Generating docs for file Vector.h... Generating docs for file versions.h... Generating docs for file WHIM.h... Generating docs for file XOrQuery.h... Generating page documentation... Generating group documentation... Generating class documentation... Generating docs for compound BitVect... Generating docs for compound Data3Ddescriptors... Generating docs for compound DatastructsException... Generating docs for compound ExplicitBitVect... Generating docs for compound IndexErrorException... Generating docs for compound KeyErrorException... Generating docs for compound MolData3Ddescriptors... Generating docs for compound PySequenceHolder... Generating docs for compound SparseBitVect... Generating docs for compound ValueErrorException... Generating namespace index... Generating docs for namespace BFGSOpt Generating docs for namespace boost Generating docs for namespace boost::logging Generating docs for compound boost::logging::rdLogger... Generating docs for namespace boost_adaptbx Generating docs for namespace boost_adaptbx::python Generating docs for compound boost_adaptbx::python::ostream... Generating docs for compound boost_adaptbx::python::streambuf... Generating docs for nested compound boost_adaptbx::python::streambuf::istream... Generating docs for nested compound boost_adaptbx::python::streambuf::ostream... Generating docs for compound boost_adaptbx::python::streambuf_capsule... Generating docs for namespace ChemicalFeatures Generating docs for compound ChemicalFeatures::ChemicalFeature... Generating docs for compound ChemicalFeatures::FreeChemicalFeature... Generating docs for namespace DistGeom Generating docs for compound DistGeom::BoundsMatrix... Generating docs for compound DistGeom::ChiralSet... Generating docs for compound DistGeom::ChiralViolationContrib... Generating docs for compound DistGeom::DistViolationContrib... Generating docs for compound DistGeom::FourthDimContrib... Generating docs for namespace ForceFields Generating docs for compound ForceFields::ForceField... Generating docs for compound ForceFields::ForceFieldContrib... Generating docs for namespace ForceFields::CrystalFF Generating docs for compound ForceFields::CrystalFF::CrystalFFDetails... Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribM6... Generating docs for namespace ForceFields::MMFF Generating docs for compound ForceFields::MMFF::AngleBendContrib... Generating docs for compound ForceFields::MMFF::AngleConstraintContrib... Generating docs /<>/Code/ForceField/MMFF/BondStretch.h:28: warning: argument 'bondType' of command @param is not found in the argument list of ForceFields::MMFF::BondStretchContrib::BondStretchContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) /<>/Code/ForceField/MMFF/BondStretch.h:28: warning: argument 'end1Params' of command @param is not found in the argument list of ForceFields::MMFF::BondStretchContrib::BondStretchContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) /<>/Code/ForceField/MMFF/BondStretch.h:28: warning: argument 'end2Params' of command @param is not found in the argument list of ForceFields::MMFF::BondStretchContrib::BondStretchContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) /<>/Code/ForceField/MMFF/BondStretch.h:36: warning: The following parameters of ForceFields::MMFF::BondStretchContrib::BondStretchContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const MMFFBond *mmffBondParams) are not documented: parameter 'mmffBondParams' /<>/Code/ForceField/MMFF/Nonbonded.h:59: warning: The following parameters of ForceFields::MMFF::EleContrib::EleContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, double chargeTerm, std::uint8_t dielModel, bool is1_4) are not documented: parameter 'chargeTerm' parameter 'dielModel' parameter 'is1_4' /<>/Code/ForceField/MMFF/Params.h:162: warning: argument 'mmffArom' of command @param is not found in the argument list of ForceFields::MMFF::MMFFAromCollection::getMMFFArom(const std::uint8_t *aromatic_types=NULL) /<>/Code/ForceField/MMFF/Params.h:178: warning: The following parameters of ForceFields::MMFF::MMFFAromCollection::getMMFFArom(const std::uint8_t *aromatic_types=NULL) are not documented: parameter 'aromatic_types' /<>/Code/ForceField/MMFF/Params.h:1087: warning: The following parameters of ForceFields::MMFF::MMFFOopCollection::getMMFFOop(const bool isMMFFs=false, const std::string &mmffOop="") are not documented: parameter 'isMMFFs' /<>/Code/ForceField/MMFF/Params.h:1216: warning: The following parameters of ForceFields::MMFF::MMFFTorCollection::getMMFFTor(const bool isMMFFs, const std::string &mmffTor="") are not documented: parameter 'isMMFFs' /<>/Code/ForceField/MMFF/PositionConstraint.h:28: warning: argument 'minDispl' of command @param is not found in the argument list of ForceFields::MMFF::PositionConstraintContrib::PositionConstraintContrib(ForceField *owner, unsigned int idx, double maxDispl, double forceConst) /<>/Code/ForceField/MMFF/StretchBend.h:32: warning: argument 'angleType' of command @param is not found in the argument list of ForceFields::MMFF::StretchBendContrib::StretchBendContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const unsigned int idx3, const MMFFStbn *mmffStbnParams, const MMFFAngle *mmffAngleParams, const MMFFBond *mmffBondParams1, const MMFFBond *mmffBondParams2) /<>/Code/ForceField/MMFF/StretchBend.h:41: warning: The following parameters of ForceFields::MMFF::StretchBendContrib::StretchBendContrib(ForceField *owner, const unsigned int idx1, const unsigned int idx2, const unsigned int idx3, const MMFFStbn *mmffStbnParams, const MMFFAngle *mmffAngleParams, const MMFFBond *mmffBondParams1, const MMFFBond *mmffBondParams2) are not documented: parameter 'mmffStbnParams' parameter 'mmffAngleParams' parameter 'mmffBondParams1' parameter 'mmffBondParams2' /<>/Code/ForceField/MMFF/TorsionAngle.h:34: warning: argument 'torsionType' of command @param is not found in the argument list of ForceFields::MMFF::TorsionAngleContrib::TorsionAngleContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, const MMFFTor *mmffTorParams) /<>/Code/ForceField/MMFF/TorsionAngle.h:45: warning: The following parameters of ForceFields::MMFF::TorsionAngleContrib::TorsionAngleContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, const MMFFTor *mmffTorParams) are not documented: parameter 'mmffTorParams' /<>/Code/ForceField/MMFF/Nonbonded.h:35: warning: The following parameters of ForceFields::MMFF::VdWContrib::VdWContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, const MMFFVdWRijstarEps *mmffVdWConstants) are not documented: parameter 'mmffVdWConstants' /<>/Code/ForceField/UFF/AngleConstraint.h:27: warning: argument 'minAngle' of command @param is not found in the argument list of ForceFields::UFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /<>/Code/ForceField/UFF/AngleConstraint.h:27: warning: argument 'maxAngle' of command @param is not found in the argument list of ForceFields::UFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) /<>/Code/ForceField/UFF/AngleConstraint.h:36: warning: The following parameters of ForceFields::UFF::AngleConstraintContrib::AngleConstraintContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, double minAngleDeg, double maxAngleDeg, double forceConst) are not documented: parameter 'minAngleDeg' parameter 'maxAngleDeg' /<>/Code/ForceField/UFF/Inversion.h:39: warning: The following parameters of ForceFields::UFF::InversionContrib::InversionContrib(ForceField *owner, unsigned int idx1, unsigned int idx2, unsigned int idx3, unsigned int idx4, int at2AtomicNum, bool isCBoundToO, double oobForceScalingFactor=1.0) are not documented: parameter 'oobForceScalingFactor' /<>/Code/ForceField/UFF/PositionConstraint.h:28: warning: argument 'minDispl' of command @param is not found in the argument list of ForceFields::UFF::PositionConstraintContrib::PositionConstraintContrib(ForceField *owner, unsigned int idx, double maxDispl, double forceConst) for compound ForceFields::MMFF::BondStretchContrib... Generating docs for compound ForceFields::MMFF::DistanceConstraintContrib... Generating docs for compound ForceFields::MMFF::EleContrib... Generating docs for compound ForceFields::MMFF::MMFFAngle... Generating docs for compound ForceFields::MMFF::MMFFAngleCollection... Generating docs for compound ForceFields::MMFF::MMFFAromCollection... Generating docs for compound ForceFields::MMFF::MMFFBndkCollection... Generating docs for compound ForceFields::MMFF::MMFFBond... Generating docs for compound ForceFields::MMFF::MMFFBondCollection... Generating docs for compound ForceFields::MMFF::MMFFChg... Generating docs for compound ForceFields::MMFF::MMFFChgCollection... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEle... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEleCollection... Generating docs for compound ForceFields::MMFF::MMFFDef... Generating docs for compound ForceFields::MMFF::MMFFDefCollection... Generating docs for compound ForceFields::MMFF::MMFFDfsbCollection... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurie... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurieCollection... Generating docs for compound ForceFields::MMFF::MMFFOop... Generating docs for compound ForceFields::MMFF::MMFFOopCollection... Generating docs for compound ForceFields::MMFF::MMFFPBCI... Generating docs for compound ForceFields::MMFF::MMFFPBCICollection... Generating docs for compound ForceFields::MMFF::MMFFProp... Generating docs for compound ForceFields::MMFF::MMFFPropCollection... Generating docs for compound ForceFields::MMFF::MMFFStbn... Generating docs for compound ForceFields::MMFF::MMFFStbnCollection... Generating docs for compound ForceFields::MMFF::MMFFTor... Generating docs for compound ForceFields::MMFF::MMFFTorCollection... Generating docs for compound ForceFields::MMFF::MMFFVdW... Generating docs for compound ForceFields::MMFF::MMFFVdWCollection... Generating docs for compound ForceFields::MMFF::MMFFVdWRijstarEps... Generating docs for compound ForceFields::MMFF::OopBendContrib... Generating docs for compound ForceFields::MMFF::PositionConstraintContrib... Generating docs for compound ForceFields::MMFF::StretchBendContrib... Generating docs for compound ForceFields::MMFF::TorsionAngleContrib... Generating docs for compound ForceFields::MMFF::TorsionConstraintContrib... Generating docs for compound ForceFields::MMFF::VdWContrib... Generating docs for namespace ForceFields::MMFF::Utils Generating docs for namespace ForceFields::UFF Generating docs for compound ForceFields::UFF::AngleBendContrib... Generating docs for compound ForceFields::UFF::AngleConstraintContrib... Generating docs for compound ForceFields::UFF::AtomicParams... Generating docs for compound ForceFields::UFF::BondStretchContrib... Generating docs for compound ForceFields::UFF::DistanceConstraintContrib... Generating docs for compound ForceFields::UFF::InversionContrib... Generating docs for compound ForceFields::UFF::ParamCollection... Generating docs for compound ForceFields::UFF::PositionConstraintContrib... Generating docs for compound ForceFields::UFF::TorsionAngleContrib... Generating docs for compound ForceFields::UFF::TorsionConstraintContrib... Generating docs for compound ForceFields::UFF::UFFAngle... Generating docs for compound ForceFields::UFF::UFFBond... Generating docs for compound ForceFields::UFF::UFFInv... Generating docs for compound ForceFields::UFF::UFFTor... Generating docs for compound ForceFields::UFF::UFFVdW... Generating docs for compound ForceFields::UFF::vdWContrib... Generating docs for namespace ForceFields::UFF::Params Generating docs for namespace ForceFields::UFF::Utils Generating docs for namespace Invar Generating docs for compound Invar::Invariant... Generating docs for namespace MolTransforms Generating docs for namespace Queries Generating docs for compound Queries::AndQuery... Generating docs for compound Queries::EqualityQuery... Generating docs for compound Queries::GreaterEqualQuery... Generating docs f/<>/Code/GraphMol/Depictor/RDDepictor.h:73: warning: The following parameters of RDDepict::compute2DCoords(RDKit::ROMol &mol, const RDGeom::INT_POINT2D_MAP *coordMap=0, bool canonOrient=false, bool clearConfs=true, unsigned int nFlipsPerSample=0, unsigned int nSamples=0, int sampleSeed=0, bool permuteDeg4Nodes=false, bool forceRDKit=false) are not documented: parameter 'forceRDKit' /<>/Code/GraphMol/Depictor/RDDepictor.h:130: warning: The following parameters of RDDepict::compute2DCoordsMimicDistMat(RDKit::ROMol &mol, const DOUBLE_SMART_PTR *dmat=0, bool canonOrient=true, bool clearConfs=true, double weightDistMat=0.5, unsigned int nFlipsPerSample=3, unsigned int nSamples=100, int sampleSeed=25, bool permuteDeg4Nodes=true, bool forceRDKit=false) are not documented: parameter 'forceRDKit' /<>/Code/GraphMol/Depictor/RDDepictor.h:162: warning: The following parameters of RDDepict::generateDepictionMatching2DStructure(RDKit::ROMol &mol, const RDKit::ROMol &reference, int confId=-1, RDKit::ROMol *referencePattern=static_cast< RDKit::ROMol * >(0), bool acceptFailure=false, bool forceRDKit=false) are not documented: parameter 'forceRDKit' /<>/Code/GraphMol/Depictor/RDDepictor.h:170: warning: argument 'refPattern' of command @param is not found in the argument list of RDDepict::generateDepictionMatching3DStructure(RDKit::ROMol &mol, const RDKit::ROMol &reference, int confId=-1, RDKit::ROMol *referencePattern=0, bool acceptFailure=false, bool forceRDKit=false) /<>/Code/GraphMol/Depictor/RDDepictor.h:189: warning: The following parameters of RDDepict::generateDepictionMatching3DStructure(RDKit::ROMol &mol, const RDKit::ROMol &reference, int confId=-1, RDKit::ROMol *referencePattern=0, bool acceptFailure=false, bool forceRDKit=false) are not documented: parameter 'referencePattern' parameter 'forceRDKit' /<>/Code/GraphMol/QueryOps.h:487: warning: Found unknown command `\overloadquery' /<>/Code/GraphMol/QueryOps.h:496: warning: Found unknown command `\overloadquery' /<>/Code/GraphMol/SubstanceGroup.h:191: warning: The following parameters of RDKit::addSubstanceGroup(ROMol &mol, SubstanceGroup sgroup) are not documented: parameter 'mol' /<>/Code/GraphMol/FileParsers/SequenceParsers.h:94: warning: argument 'seq' of command @param is not found in the argument list of RDKit::HELMToMol(const char *helm, bool sanitize=true) /<>/Code/GraphMol/FileParsers/SequenceParsers.h:99: warning: The following parameters of RDKit::HELMToMol(const char *helm, bool sanitize=true) are not documented: parameter 'helm' /<>/Code/GraphMol/Fingerprints/Fingerprints.h:105: warning: The following parameters of RDKit::LayeredFingerprintMol(const ROMol &mol, unsigned int layerFlags=0xFFFFFFFF, unsigned int minPath=1, unsigned int maxPath=7, unsigned int fpSize=2048, std::vector< unsigned int > *atomCounts=0, ExplicitBitVect *setOnlyBits=0, bool branchedPaths=true, const std::vector< std::uint32_t > *fromAtoms=0) are not documented: parameter 'fromAtoms' /<>/Code/GraphMol/QueryOps.h:487: warning: Found unknown command `\overloadquery' /<>/Code/GraphMol/QueryOps.h:496: warning: Found unknown command `\overloadquery' /<>/Code/GraphMol/SmilesParse/SmilesWrite.h:128: warning: The following parameters of RDKit::MolToCXSmiles(const ROMol &mol, bool doIsomericSmiles=true, bool doKekule=false, int rootedAtAtom=-1, bool canonical=true, bool allBondsExplicit=false, bool allHsExplicit=false, bool doRandom=false) are not documented: parameter 'doRandom' /<>/Code/GraphMol/FileParsers/FileParsers.h:282: warning: argument 'fName' of command @param is not found in the argument list of RDKit::MolToPDBFile(const ROMol &mol, const std::string &fname, int confId=-1, unsigned int flavor=0) /<>/Code/GraphMol/FileParsers/FileParsers.h:293: warning: The following parameters of RDKit::MolToPDBFile(const ROMol &mol, const std::string &fname, int confId=-1, unsigned int flavor=0) are not documented: parameter 'fname' /<>/Code/GraphMol/SmilesParse/SmilesWrite.h:76: warning: The following parameters of RDKit::MolToSmiles(const ROMol &mol, bool doIsomericSmiles=true, bool doKekule=false, int rootedAtAtom=-1, bool canonical=true, bool allBondsExplicit=false, bool allHsExplicit=false, bool doRandom=false) are not documented: parameter 'doRandom' /<>/Code/GraphMol/ChemTransforms/ChemTransforms.h:236: warning: argument 'delimiter' of command @param is not found in the argument list of RDKit::parseQueryDefFile(const std::string &filename, std::map< std::string, ROMOL_SPTR > &queryDefs, bool standardize=true) /<>/Code/GraphMol/ChemTransforms/ChemTransforms.h:236: warning: argument 'comment' of command @param is not found in the argument list of RDKit::parseQueryDefFile(const std::string &filename, std::map< std::string, ROMOL_SPTR > &queryDefs, bool standardize=true) /<>/Code/GraphMol/ChemTransforms/ChemTransforms.h:236: warning: argument 'nameColumn' of command @param is not found in the argument list of RDKit::parseQueryDefFile(const std::string &filename, std::map< std::string, ROMOL_SPTR > &queryDefs, bool standardize=true) /<>/Code/GraphMol/ChemTransforms/ChemTransforms.h:236: warning: argument 'smartsColumn' of command @param is not found in the argument list of RDKit::parseQueryDefFile(const std::string &filename, std::map< std::string, ROMOL_SPTR > &queryDefs, bool standardize=true) /<>/Code/GraphMol/Fingerprints/Fingerprints.h:26: warning: argument 'useBondOrders' of command @param is not found in the argument list of RDKit::RDKFingerprintMol(const ROMol &mol, unsigned int minPath=1, unsigned int maxPath=7, unsigned int fpSize=2048, unsigned int nBitsPerHash=2, bool useHs=true, double tgtDensity=0.0, unsigned int minSize=128, bool branchedPaths=true, bool useBondOrder=true, std::vector< std::uint32_t > *atomInvariants=0, const std::vector< std::uint32_t > *fromAtoms=0, std::vector< std::vector< std::uint32_t > > *atomBits=0, std::map< std::uint32_t, std::vector< std::vector< int > > > *bitInfo=0) /<>/Code/GraphMol/Fingerprints/Fingerprints.h:53: warning: The following parameters of RDKit::RDKFingerprintMol(const ROMol &mol, unsigned int minPath=1, unsigned int maxPath=7, unsigned int fpSize=2048, unsigned int nBitsPerHash=2, bool useHs=true, double tgtDensity=0.0, unsigned int minSize=128, bool branchedPaths=true, bool useBondOrder=true, std::vector< std::uint32_t > *atomInvariants=0, const std::vector< std::uint32_t > *fromAtoms=0, std::vector< std::vector< std::uint32_t > > *atomBits=0, std::map< std::uint32_t, std::vector< std::vector< int > > > *bitInfo=0) are not documented: parameter 'useBondOrder' parameter 'bitInfo' /<>/Code/GraphMol/ChemReactions/ReactionRunner.h:96: warning: The following parameters of RDKit::reduceProductToSideChains(const ROMOL_SPTR &product, bool addDummyAtoms=true) are not documented: parameter 'product' /<>/Code/GraphMol/ChemTransforms/ChemTransforms.h:111: warning: argument 'useChirality' of command @param is not found in the argument list of RDKit::replaceCore(const ROMol &mol, const ROMol &core, const MatchVectType &matchVect, bool replaceDummies=true, bool labelByIndex=false, bool requireDummyMatch=false) /<>/Code/GraphMol/ChemReactions/ReactionRunner.h:64: warning: argument 'reactantTemplateIdx' of command @param is not found in the argument list of RDKit::run_Reactant(const ChemicalReaction &rxn, const ROMOL_SPTR &reactant, unsigned int reactantIdx) /<>/Code/GraphMol/ChemReactions/ReactionRunner.h:77: warning: The following parameters of RDKit::run_Reactant(const ChemicalReaction &rxn, const ROMOL_SPTR &reactant, unsigned int reactantIdx) are not documented: parameter 'rxn' parameter 'reactantIdx' /<>/Code/GraphMol/Substruct/SubstructMatch.h:56: warning: argument 'matchParams' of command @param is not found in the argument list of RDKit::SubstructMatch(const ROMol &mol, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) /<>/Code/GraphMol/Substruct/SubstructMatch.h:63: warning: The following parameters of RDKit::SubstructMatch(const ROMol &mol, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) are not documented: parameter 'params' /<>/Code/GraphMol/Substruct/SubstructMatch.h:69: warning: argument 'matchParams' of command @param is not found in the argument list of RDKit::SubstructMatch(ResonanceMolSupplier &resMolSuppl, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) /<>/Code/GraphMol/Substruct/SubstructMatch.h:76: warning: The following parameters of RDKit::SubstructMatch(ResonanceMolSupplier &resMolSuppl, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) are not documented: parameter 'params' /<>/Code/GraphMol/Substruct/SubstructMatch.h:145: warning: The following parameters of RDKit::SubstructMatch(T1 &mol, const T2 &query, std::vector< MatchVectType > &matchVect, bool uniquify=true, bool recursionPossible=true, bool useChirality=false, bool useQueryQueryMatches=false, unsigned int maxMatches=1000, int numThreads=1) are not documented: parameter 'numThreads' /<>/Code/GraphMol/Fingerprints/FingerprintGenerator.h:107: warning: The following parameters of RDKit::AtomEnvironment::getBitId(FingerprintArguments< OutputType > *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, const AdditionalOutput *AdditionalOutput, const bool hashResults=false) const=0 are not documented: parameter 'AdditionalOutput' /<>/Code/GraphMol/ChemReactions/Reaction.h:207: warning: argument 'maxProducts' of command @param is not found in the argument list of RDKit::ChemicalReaction::runReactants(const MOL_SPTR_VECT reactants, unsigned int numProducts=1000) const /<>/Code/GraphMol/ChemReactions/Reaction.h:221: warning: The following parameters of RDKit::ChemicalReaction::runReactants(const MOL_SPTR_VECT reactants, unsigned int numProducts=1000) const are not documented: parameter 'numProducts' or compound Queries::GreaterQuery... Generating docs for compound Queries::Int2Type... Generating docs for compound Queries::LessEqualQuery... Generating docs for compound Queries::LessQuery... Generating docs for compound Queries::OrQuery... Generating docs for compound Queries::Query... Generating docs for compound Queries::RangeQuery... Generating docs for compound Queries::SetQuery... Generating docs for compound Queries::XOrQuery... Generating docs for namespace Rankers Generating docs for compound Rankers::argless... Generating docs for compound Rankers::pairGreater... Generating docs for compound Rankers::pairLess... Generating docs for namespace RDCatalog Generating docs for compound RDCatalog::Catalog... Generating docs for compound RDCatalog::CatalogEntry... Generating docs for compound RDCatalog::CatalogParams... Generating docs for compound RDCatalog::HierarchCatalog... Generating docs for nested compound RDCatalog::HierarchCatalog::vertex_entry_t... Generating docs for compound RDCatalog::LinearCatalog... Generating docs for namespace RDDataManip Generating docs for compound RDDataManip::MetricMatrixCalc... Generating docs for namespace RDDepict Generating docs for compound RDDepict::DepictException... Generating docs for compound RDDepict::EmbeddedAtom... Generating docs for compound RDDepict::EmbeddedFrag... Generating docs for compound RDDepict::gtIIPair... Generating docs for namespace RDFeatures Generating docs for compound RDFeatures::ExplicitFeature... Generating docs for compound RDFeatures::ImplicitFeature... Generating docs for namespace RDGeom Generating docs for compound RDGeom::Grid3D... Generating docs for compound RDGeom::GridException... Generating docs for compound RDGeom::Point... Generating docs for compound RDGeom::Point2D... Generating docs for compound RDGeom::Point3D... Generating docs for compound RDGeom::PointND... Generating docs for compound RDGeom::Transform2D... Generating docs for compound RDGeom::Transform3D... Generating docs for compound RDGeom::UniformGrid3D... Generating docs for namespace RDInfoTheory Generating docs for compound RDInfoTheory::BitCorrMatGenerator... Generating docs for compound RDInfoTheory::InfoBitRanker... Generating docs for namespace RDKit Generating docs for compound RDKit::AdditionalOutput... Generating docs for compound RDKit::AromaticAtomIterator_... Generating docs for compound RDKit::Atom... Generating docs for compound RDKit::AtomEnvironment... Generating docs for compound RDKit::AtomEnvironmentGenerator... Generating docs for compound RDKit::atomicData... Generating docs for compound RDKit::AtomInvariantsGenerator... Generating docs for compound RDKit::AtomIterator_... Generating docs for compound RDKit::AtomMonomerInfo... Generating docs for compound RDKit::AtomPDBResidueInfo... Generating docs for compound RDKit::AtomRingQuery... Generating docs for compound RDKit::BadFileException... Generating docs for compound RDKit::Bond... Generating docs for compound RDKit::BondInvariantsGenerator... Generating docs for compound RDKit::BondIterator_... Generating docs for compound RDKit::CachedMolHolder... Generating docs for compound RDKit::CachedSmilesMolHolder... Generating docs for compound RDKit::CachedTrustedSmilesMolHolder... Generating docs for compound RDKit::CartesianProductStrategy... Generating docs for compound RDKit::charptr_functor... Generating docs for compound RDKit::ChemicalReaction... Generating docs for compound RDKit::ChemicalReactionException... Generating docs for compound RDKit::ChemicalReactionParserException... Generating docs for compound RDKit::Conformer... Generating docs for compound RDKit::ConformerException... Generating docs for compound RDKit::ConstBondIterator_... Generating docs for compound RDKit::CustomPropHandler... Generating docs for compound RDKit::CXXAtomIterator... Generating docs for nested compound RDKit::CXXAtomIterator::CXXAtomIter... Generating docs for compound RDKit::CXXBondIterator... Generating docs for nested compound RDKit::CXXBondIterator::CXXBondIter... Generating docs for compound RDKit::DataStr/<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:415: warning: argument 'matches' of command @param is not found in the argument list of RDKit::ExclusionList::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 100 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:415: warning: The following parameters of RDKit::ExclusionList::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const are not documented: parameter 'matchVect' /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:100: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatcherBase::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const=0 /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:106: warning: The following parameters of RDKit::FilterMatcherBase::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const=0 are not documented: parameter 'matchVect' /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:193: warning: The following parameters of RDKit::MolDraw2D::drawMolecule(const ROMol &mol, const std::string &legend, const std::vector< int > *highlight_atoms, const std::vector< int > *highlight_bonds, const std::map< int, DrawColour > *highlight_atom_map=nullptr, const std::map< int, DrawColour > *highlight_bond_map=nullptr, const std::map< int, double > *highlight_radii=nullptr, int confId=-1) are not documented: parameter 'highlight_bonds' /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:224: warning: argument 'highlight_atom_map' of command @param is not found in the argument list of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int >> *highlight_atoms=nullptr, const std::vector< std::vector< int >> *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour >> *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour >> *highlight_bond_maps=nullptr, const std::vector< std::map< int, double >> *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:224: warning: argument 'highlight_bond_map' of command @param is not found in the argument list of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int >> *highlight_atoms=nullptr, const std::vector< std::vector< int >> *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour >> *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour >> *highlight_bond_maps=nullptr, const std::vector< std::map< int, double >> *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:224: warning: argument 'confId' of command @param is not found in the argument list of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int >> *highlight_atoms=nullptr, const std::vector< std::vector< int >> *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour >> *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour >> *highlight_bond_maps=nullptr, const std::vector< std::map< int, double >> *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) /<>/Code/GraphMol/MolDraw2D/MolDraw2D.h:248: warning: The following parameters of RDKit::MolDraw2D::drawMolecules(const std::vector< ROMol * > &mols, const std::vector< std::string > *legends=nullptr, const std::vector< std::vector< int >> *highlight_atoms=nullptr, const std::vector< std::vector< int >> *highlight_bonds=nullptr, const std::vector< std::map< int, DrawColour >> *highlight_atom_maps=nullptr, const std::vector< std::map< int, DrawColour >> *highlight_bond_maps=nullptr, const std::vector< std::map< int, double >> *highlight_radii=nullptr, const std::vector< int > *confIds=nullptr) are not documented: parameter 'highlight_bonds' parameter 'highlight_atom_maps' parameter 'highlight_bond_maps' parameter 'confIds' uctsExplicitBitVecPropHandler... Generating docs for compound RDKit::Dict... Generating docs for nested compound RDKit::Dict::Pair... Generating docs for compound RDKit::DiscreteDistMat... Generating docs for compound RDKit::DiscreteValueVect... Generating docs for compound RDKit::EnumerateLibrary... Generating docs for compound RDKit::EnumerateLibraryBase... Generating docs for compound RDKit::EnumerationParams... Generating docs for compound RDKit::EnumerationStrategyBase... Generating docs for compound RDKit::EnumerationStrategyException... Generating docs for compound RDKit::EvenSamplePairsStrategy... Generating docs for compound RDKit::ExclusionList... Generating docs for compound RDKit::FeatureFileParseException... Generating docs for compound RDKit::FileParseException... Generating docs for compound RDKit::FilterCatalog... Generating docs for compound RDKit::FilterCatalogEntry... Generating docs for compound RDKit::FilterCatalogParams... Generating docs for compound RDKit::FilterData_t... Generating docs for compound RDKit::FilterHierarchyMatcher... Generating docs for compound RDKit::FilterMatch... Generating docs for compound RDKit::FilterMatcherBase... Generating docs for compound RDKit::FilterProperty_t... Generating docs for compound RDKit::FingerprintArguments... Generating docs for compound RDKit::FingerprintGenerator... Generating docs for compound RDKit::ForwardSDMolSupplier... Generating docs for compound RDKit::FPBReader... Generating docs for compound RDKit::FPHolderBase... Generating docs for compound RDKit::FragCatalogEntry... Generating docs for compound RDKit::FragCatGenerator... Generating docs for compound RDKit::FragCatParams... Generating docs for compound RDKit::FragFPGenerator... Generating docs for compound RDKit::GasteigerParams... Generating docs for compound RDKit::HasPropQuery... Generating docs for compound RDKit::HasPropWithValueQuery... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, ExplicitBitVect >... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, std::string >... Generating docs for compound RDKit::HeteroatomIterator_... Generating docs for compound RDKit::larger_of... Generating docs for compound RDKit::ltDouble... Generating docs for compound RDKit::MatchingAtomIterator_... Generating docs for compound RDKit::MCSAtomCompareParameters... Generating docs for compound RDKit::MCSBondCompareParameters... Generating docs for compound RDKit::MCSParameters... Generating docs for compound RDKit::MCSProgressData... Generating docs for compound RDKit::MCSResult... Generating docs for compound RDKit::MolBundle... Generating docs for compound RDKit::MolCatalogEntry... Generating docs for compound RDKit::MolCatalogParams... Generating docs for compound RDKit::MolChemicalFeature... Generating docs for compound RDKit::MolChemicalFeatureDef... Generating docs for compound RDKit::MolChemicalFeatureFactory... Generating docs for compound RDKit::MolDraw2D... Generating docs for compound RDKit::MolDraw2DCairo... Generating docs for compound RDKit::MolDraw2DQt... Generating docs for compound RDKit::MolDraw2DSVG... Generating docs for compound RDKit::MolDraw2Dwx... Generating docs for compound RDKit::MolDrawOptions... Generating docs for compound RDKit::MolFileUnhandledFeatureException... Generating docs for compound RDKit::MolHolder... Generating docs for compound RDKit::MolHolderBase... Generating docs for compound RDKit::MolPickler... Generating docs for compound RDKit::MolPicklerException... Generating docs for compound RDKit::MolSanitizeException... Generating docs for compound RDKit::MolSupplier... Generating docs for compound RDKit::MolWriter... Generating docs for compound RDKit::MultiFPBReader... Generating docs for compound RDKit::MultiMolDraw2D... Generating docs for compound RDKit::PatternHolder... Generating docs for compound RDKit::PDBMolSupplier... Generating docs for compound RDKit::PDBWriter... Generating docs for compound RDKit::PeriodicTable... Generating docs for compound RDKit::QueryAtom... Generating docs for compound RDKit::QueryAtomI/<>/Code/GraphMol/Resonance.h:56: warning: argument 'numThreads' of command @param is not found in the argument list of RDKit::ResonanceMolSupplier::ResonanceMolSupplier(ROMol &mol, unsigned int flags=0, unsigned int maxStructs=1000) /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:322: warning: argument 'matches' of command @param is not found in the argument list of RDKit::SmartsMatcher::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 100 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:322: warning: The following parameters of RDKit::SmartsMatcher::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const are not documented: parameter 'matchVect' /<>/Code/GraphMol/FileParsers/MolSupplier.h:214: warning: argument 'delimiter' of command @param is not found in the argument list of RDKit::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName) /<>/Code/GraphMol/FileParsers/MolSupplier.h:214: warning: argument 'smilesColumn' of command @param is not found in the argument list of RDKit::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName) /<>/Code/GraphMol/FileParsers/MolSupplier.h:214: warning: argument 'nameColumn' of command @param is not found in the argument list of RDKit::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName) /<>/Code/GraphMol/FileParsers/MolSupplier.h:214: warning: argument 'titleLine' of command @param is not found in the argument list of RDKit::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName) /<>/Code/GraphMol/FileParsers/MolSupplier.h:214: warning: argument 'sanitize' of command @param is not found in the argument list of RDKit::SmilesMolSupplier::SmilesMolSupplier(const std::string &fileName) /<>/Code/GraphMol/Fingerprints/AtomPairGenerator.h:103: warning: The following parameters of RDKit::AtomPair::AtomPairAtomEnv::getBitId(FingerprintArguments< OutputType > *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, const AdditionalOutput *AdditionalOutput, const bool hashResults=false) const are not documented: parameter 'AdditionalOutput' /<>/Code/GraphMol/Fingerprints/AtomPairs.h:121: warning: The following parameters of RDKit::AtomPairs::getHashedAtomPairFingerprint(const ROMol &mol, unsigned int nBits=2048, unsigned int minLength=1, unsigned int maxLength=maxPathLen - 1, const std::vector< std::uint32_t > *fromAtoms=0, const std::vector< std::uint32_t > *ignoreAtoms=0, const std::vector< std::uint32_t > *atomInvariants=0, bool includeChirality=false, bool use2D=true, int confId=-1) are not documented: parameter 'confId' /<>/Code/GraphMol/Fingerprints/FingerprintUtil.h:77: warning: The following parameters of RDKit::AtomPairs::getTopologicalTorsionCode(const std::vector< std::uint32_t > &atomCodes, bool includeChirality=false) are not documented: parameter 'includeChirality' /<>/Code/GraphMol/Canon.h:113: warning: The following parameters of RDKit::Canon::canonicalizeFragment(ROMol &mol, int atomIdx, std::vector< AtomColors > &colors, const std::vector< unsigned int > &ranks, MolStack &molStack, const boost::dynamic_bitset<> *bondsInPlay=0, const std::vector< std::string > *bondSymbols=0, bool doIsomericSmiles=false, bool doRandom=false) are not documented: parameter 'bondsInPlay' parameter 'bondSymbols' parameter 'doIsomericSmiles' parameter 'doRandom' /<>/Code/GraphMol/Descriptors/Lipinski.h:45: warning: argument 'strict' of command @param is not found in the argument list of RDKit::Descriptors::calcNumRotatableBonds(const ROMol &mol, NumRotatableBondsOptions useStrictDefinition=Default) /<>/Code/GraphMol/Descriptors/Lipinski.h:52: warning: The following parameters of RDKit::Descriptors::calcNumRotatableBonds(const ROMol &mol, NumRotatableBondsOptions useStrictDefinition=Default) are not documented: parameter 'useStrictDefinition' /<>/Code/GraphMol/Descriptors/USRDescriptor.h:79: warning: The following parameters of RDKit::Descriptors::USRCAT(const ROMol &mol, std::vector< double > &descriptor, std::vector< std::vector< unsigned int >> &atomIds, int confId=-1) are not documented: parameter 'atomIds' /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:86: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatchOps::And::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 100 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:86: warning: The following parameters of RDKit::FilterMatchOps::And::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const are not documented: parameter 'matchVect' terator_... Generating docs for compound RDKit::QueryBond... Generating docs for compound RDKit::RandomSampleAllBBsStrategy... Generating docs for compound RDKit::RandomSampleStrategy... Generating docs for compound RDKit::RDAny... Generating docs for compound RDKit::RDProps... Generating docs for compound RDKit::RDValue... Generating docs for compound RDKit::ReactionFingerprintParams... Generating docs for compound RDKit::ReactionPickler... Generating docs for compound RDKit::ReactionPicklerException... Generating docs for compound RDKit::RecursiveStructureQuery... Generating docs for compound RDKit::ResonanceMolSupplier... Generating docs for compound RDKit::RGroupDecomposition... Generating docs for compound RDKit::RGroupDecompositionParameters... Generating docs for compound RDKit::RingInfo... Generating docs for compound RDKit::ROMol... Generating docs for compound RDKit::RWMol... Generating docs for compound RDKit::RxnSanitizeException... Generating docs for compound RDKit::SDMolSupplier... Generating docs for compound RDKit::SDWriter... Generating docs for compound RDKit::SLNParseException... Generating docs for compound RDKit::SmartsMatcher... Generating docs for compound RDKit::SmilesMolSupplier... Generating docs for compound RDKit::SmilesParseException... Generating docs for compound RDKit::SmilesParserParams... Generating docs for compound RDKit::SmilesWriter... Generating docs for compound RDKit::Snapshot... Generating docs for compound RDKit::SparseIntVect... Generating docs for compound RDKit::StereoGroup... Generating docs for compound RDKit::SubstanceGroup... Generating docs for nested compound RDKit::SubstanceGroup::AttachPoint... Generating docs for nested compound RDKit::SubstanceGroup::CState... Generating docs for compound RDKit::SubstanceGroupException... Generating docs for compound RDKit::SubstructLibrary... Generating docs for compound RDKit::SubstructMatchParameters... Generating docs for compound RDKit::TDTMolSupplier... Generating docs for compound RDKit::TDTWriter... Generating docs for compound RDKit::Trajectory... Generating docs for compound RDKit::UnimplementedFPException... Generating docs for namespace RDKit::AtomPair Generating docs for compound RDKit::AtomPair::AtomPairArguments... Generating docs for compound RDKit::AtomPair::AtomPairAtomEnv... Generating docs for compound RDKit::AtomPair::AtomPairAtomInvGenerator... Generating docs for compound RDKit::AtomPair::AtomPairEnvGenerator... Generating docs for namespace RDKit::AtomPairs Generating docs for namespace RDKit::Canon Generating docs for compound RDKit::Canon::AtomCompareFunctor... Generating docs for compound RDKit::Canon::bondholder... Generating docs for compound RDKit::Canon::canon_atom... Generating docs for compound RDKit::Canon::ChiralAtomCompareFunctor... Generating docs for compound RDKit::Canon::MolStackElem... Generating docs for compound RDKit::Canon::MolStackUnion... Generating docs for compound RDKit::Canon::SpecialChiralityAtomCompareFunctor... Generating docs for compound RDKit::Canon::SpecialSymmetryAtomCompareFunctor... Generating docs for namespace RDKit::common_properties Generating docs for namespace RDKit::constants Generating docs for namespace RDKit::Descriptors Generating docs for compound RDKit::Descriptors::CrippenParamCollection... Generating docs for compound RDKit::Descriptors::CrippenParams... Generating docs for compound RDKit::Descriptors::Properties... Generating docs for compound RDKit::Descriptors::PropertyFunctor... Generating docs for namespace RDKit::Descriptors::detail Generating docs for namespace RDKit::detail Generating docs for namespace RDKit::DGeomHelpers Generating docs for compound RDKit::DGeomHelpers::EmbedParameters... Generating docs for namespace RDKit::DTags Generating docs for namespace RDKit::EnumerationStrategyPickler Generating docs for namespace RDKit::EnumerationTypes Generating docs for namespace RDKit::FileParserUtils Generating docs for namespace RDKit::FilterMatchOps Generating docs for compound RDKit::FilterMatchOps::And... Generating docs for compound RDKit::Filt/<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:204: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatchOps::Not::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 100 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:204: warning: The following parameters of RDKit::FilterMatchOps::Not::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const are not documented: parameter 'matchVect' /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:148: warning: argument 'matches' of command @param is not found in the argument list of RDKit::FilterMatchOps::Or::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const inherited from member getMatches at line 100 in file /<>/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /<>/Code/GraphMol/FilterCatalog/FilterMatchers.h:148: warning: The following parameters of RDKit::FilterMatchOps::Or::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const are not documented: parameter 'matchVect' /<>/Code/GraphMol/MMPA/MMPA.h:36: warning: The following parameters of RDKit::MMPA::fragmentMol(const ROMol &mol, std::vector< std::pair< ROMOL_SPTR, ROMOL_SPTR > > &result, unsigned int maxCuts=3, unsigned int maxCutBonds=20, const std::string &pattern="[#6+0;!$(*=,#[!#6])]!@!=!#[*]") are not documented: parameter 'pattern' /<>/Code/GraphMol/MMPA/MMPA.h:57: warning: The following parameters of RDKit::MMPA::fragmentMol(const ROMol &mol, std::vector< std::pair< ROMOL_SPTR, ROMOL_SPTR > > &result, unsigned int minCuts, unsigned int maxCuts, unsigned int maxCutBonds, const std::string &pattern="[#6+0;!$(*=,#[!#6])]!@!=!#[*]") are not documented: parameter 'pattern' /<>/Code/GraphMol/MolOps.h:647: warning: The following parameters of RDKit::MolOps::getAdjacencyMatrix(const ROMol &mol, bool useBO=false, int emptyVal=0, bool force=false, const char *propNamePrefix=0, const boost::dynamic_bitset<> *bondsToUse=0) are not documented: parameter 'bondsToUse' /<>/Code/GraphMol/MolOps.h:259: warning: The following parameters of RDKit::MolOps::mergeQueryHs(const ROMol &mol, bool mergeUnmappedOnly=false) are not documented: parameter 'mergeUnmappedOnly' erMatchOps::Not... Generating docs for compound RDKit::FilterMatchOps::Or... Generating docs for namespace RDKit::FMCS Generating docs for compound RDKit::FMCS::Composition2N... Generating docs for compound RDKit::FMCS::DuplicatedSeedCache... Generating docs for nested compound RDKit::FMCS::DuplicatedSeedCache::TKey... Generating docs for compound RDKit::FMCS::ExecStatistics... Generating docs for compound RDKit::FMCS::Graph... Generating docs for compound RDKit::FMCS::MaximumCommonSubgraph... Generating docs for compound RDKit::FMCS::MolFragment... Generating docs for compound RDKit::FMCS::NewBond... Generating docs for compound RDKit::FMCS::RingMatchTableSet... Generating docs for compound RDKit::FMCS::Seed... Generating docs for compound RDKit::FMCS::SeedSet... Generating docs for compound RDKit::FMCS::SubstructureCache... Generating docs for nested compound RDKit::FMCS::SubstructureCache::HashKey... Generating docs for nested compound RDKit::FMCS::SubstructureCache::KeyNumericMetrics... Generating docs for compound RDKit::FMCS::Target... Generating docs for compound RDKit::FMCS::TargetMatch... Generating docs for compound RDKit::FMCS::TArray2D... Generating docs for namespace RDKit::Local Generating docs for namespace RDKit::MACCSFingerprints Generating docs for namespace RDKit::MMFF Generating docs for compound RDKit::MMFF::MMFFAtomProperties... Generating docs for compound RDKit::MMFF::MMFFMolProperties... Generating docs for namespace RDKit::MMFF::Tools Generating docs for compound RDKit::MMFF::Tools::DefaultTorsionBondSmarts... Generating docs for namespace RDKit::MMPA Generating docs for namespace RDKit::MolAlign Generating docs for compound RDKit::MolAlign::LAP... Generating docs for compound RDKit::MolAlign::MolAlignException... Generating docs for compound RDKit::MolAlign::MolHistogram... Generating docs for compound RDKit::MolAlign::O3A... Generating docs for compound RDKit::MolAlign::O3AConstraint... Generating docs for compound RDKit::MolAlign::O3AConstraintVect... Generating docs for compound RDKit::MolAlign::O3AFuncData... Generating docs for compound RDKit::MolAlign::SDM... Generating docs for namespace RDKit::MolDraw2D_detail Generating docs for namespace RDKit::MolDraw2DUtils Generating docs for namespace RDKit::MolFragmenter Generating docs for compound RDKit::MolFragmenter::FragmenterBondType... Generating docs for namespace RDKit::MolHash Generating docs for compound RDKit::MolHash::HashSet... Generating docs for namespace RDKit::MolInterchange Generating docs for compound RDKit::MolInterchange::JSONParseParameters... Generating docs for namespace RDKit::MolOps Generating docs for compound RDKit::MolOps::AdjustQueryParameters... Generating docs for namespace RDKit::MolShapes Generating docs for namespace RDKit::MolStandardize Generating docs for compound RDKit::MolStandardize::AcidBaseCatalogEntry... Generating docs for compound RDKit::MolStandardize::AcidBaseCatalogParams... Generating docs for compound RDKit::MolStandardize::AllowedAtomsValidation... Generating docs for compound RDKit::MolStandardize::ChargeCorrection... Generating docs for compound RDKit::MolStandardize::CleanupParameters... Generating docs for compound RDKit::MolStandardize::DisallowedAtomsValidation... Generating docs for compound RDKit::MolStandardize::FragmentCatalogEntry... Generating docs for compound RDKit::MolStandardize::FragmentCatalogParams... Generating docs for compound RDKit::MolStandardize::FragmentRemover... Generating docs for compound RDKit::MolStandardize::FragmentValidation... Generating docs for compound RDKit::MolStandardize::IsotopeValidation... Generating docs for compound RDKit::MolStandardize::LargestFragmentChooser... Generating docs for nested compound RDKit::MolStandardize::LargestFragmentChooser::Largest... Generating docs for compound RDKit::MolStandardize::MetalDisconnector... Generating docs for compound RDKit::MolStandardize::MolVSValidation... Generating docs for compound RDKit::MolStandardize::MolVSValidations... Generating docs for compound RDKit::MolStandardize::NeutralValidation... Generati/<>/Code/GraphMol/Fingerprints/MorganGenerator.h:189: warning: argument 'OutputType' of command @param is not found in the argument list of RDKit::MorganFingerprint::getMorganGenerator(const unsigned int radius, const bool countSimulation=true, const bool includeChirality=false, const bool useBondTypes=true, const bool onlyNonzeroInvariants=false, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, BondInvariantsGenerator *bondInvariantsGenerator=nullptr, const std::uint32_t fpSize=2048, const std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, const bool ownsAtomInvGen=false, const bool ownsBondInvGen=false) /<>/Code/GraphMol/Fingerprints/MorganGenerator.h:189: warning: argument 'radiu' of command @param is not found in the argument list of RDKit::MorganFingerprint::getMorganGenerator(const unsigned int radius, const bool countSimulation=true, const bool includeChirality=false, const bool useBondTypes=true, const bool onlyNonzeroInvariants=false, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, BondInvariantsGenerator *bondInvariantsGenerator=nullptr, const std::uint32_t fpSize=2048, const std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, const bool ownsAtomInvGen=false, const bool ownsBondInvGen=false) /<>/Code/GraphMol/Fingerprints/MorganGenerator.h:228: warning: The following parameters of RDKit::MorganFingerprint::getMorganGenerator(const unsigned int radius, const bool countSimulation=true, const bool includeChirality=false, const bool useBondTypes=true, const bool onlyNonzeroInvariants=false, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, BondInvariantsGenerator *bondInvariantsGenerator=nullptr, const std::uint32_t fpSize=2048, const std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, const bool ownsAtomInvGen=false, const bool ownsBondInvGen=false) are not documented: parameter 'radius' /<>/Code/GraphMol/Fingerprints/MorganGenerator.h:151: warning: The following parameters of RDKit::MorganFingerprint::MorganAtomEnv::getBitId(FingerprintArguments< OutputType > *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, const AdditionalOutput *AdditionalOutput, const bool hashResults=false) const are not documented: parameter 'AdditionalOutput' /<>/Code/GraphMol/Fingerprints/MorganFingerprints.h:152: warning: The following parameters of RDKit::MorganFingerprints::getHashedFingerprint(const ROMol &mol, unsigned int radius, unsigned int nBits=2048, std::vector< std::uint32_t > *invariants=0, const std::vector< std::uint32_t > *fromAtoms=0, bool useChirality=false, bool useBondTypes=true, bool onlyNonzeroInvariants=false, BitInfoMap *atomsSettingBits=0) are not documented: parameter 'nBits' /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h:109: warning: argument 'useCountSimulation' of command @param is not found in the argument list of RDKit::RDKitFP::getRDKitFPGenerator(const unsigned int minPath=1, const unsigned int maxPath=7, const bool useHs=true, const bool branchedPaths=true, const bool useBondOrder=true, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, const bool countSimulation=true, const std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, const std::uint32_t fpSize=2048, const bool ownsAtomInvGen=false) /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h:133: warning: The following parameters of RDKit::RDKitFP::getRDKitFPGenerator(const unsigned int minPath=1, const unsigned int maxPath=7, const bool useHs=true, const bool branchedPaths=true, const bool useBondOrder=true, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, const bool countSimulation=true, const std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, const std::uint32_t fpSize=2048, const bool ownsAtomInvGen=false) are not documented: parameter 'countSimulation' /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h:35: warning: argument 'useCountSimulation' of command @param is not found in the argument list of RDKit::RDKitFP::RDKitFPArguments< OutputType >::RDKitFPArguments(unsigned int minPath, unsigned int maxPath, bool useHs, bool branchedPaths, bool useBondOrder, const bool countSimulation, const std::vector< std::uint32_t > countBounds, const std::uint32_t fpSize) /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h:52: warning: The following parameters of RDKit::RDKitFP::RDKitFPArguments::RDKitFPArguments(unsigned int minPath, unsigned int maxPath, bool useHs, bool branchedPaths, bool useBondOrder, const bool countSimulation, const std::vector< std::uint32_t > countBounds, const std::uint32_t fpSize) are not documented: parameter 'countSimulation' /<>/Code/GraphMol/Fingerprints/RDKitFPGenerator.h:75: warning: The following parameters of RDKit::RDKitFP::RDKitFPAtomEnv::getBitId(FingerprintArguments< OutputType > *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, const AdditionalOutput *AdditionalOutput, const bool hashResults=false) const are not documented: parameter 'AdditionalOutput' /<>/Code/GraphMol/ReducedGraphs/ReducedGraphs.h:34: warning: The following parameters of RDKit::ReducedGraphs::generateMolExtendedReducedGraph(const ROMol &mol, std::vector< boost::dynamic_bitset<> > *atomTypes=0) are not documented: parameter 'atomTypes' /<>/Code/GraphMol/ChemReactions/SanitizeRxn.h:124: warning: argument 'operationThatFailed' of command @param is not found in the argument list of RDKit::RxnOps::sanitizeRxn(ChemicalReaction &rxn, unsigned int &operationsThatFailed, unsigned int sanitizeOps=SANITIZE_ALL, const MolOps::AdjustQueryParameters ¶ms=DefaultRxnAdjustParams()) /<>/Code/GraphMol/ChemReactions/SanitizeRxn.h:155: warning: The following parameters of RDKit::RxnOps::sanitizeRxn(ChemicalReaction &rxn, unsigned int &operationsThatFailed, unsigned int sanitizeOps=SANITIZE_ALL, const MolOps::AdjustQueryParameters ¶ms=DefaultRxnAdjustParams()) are not documented: parameter 'operationsThatFailed' parameter 'params' /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:87: warning: argument 'useCountSimulation' of command @param is not found in the argument list of RDKit::TopologicalTorsion::getTopologicalTorsionGenerator(const bool includeChirality=false, const uint32_t torsionAtomCount=4, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, const bool countSimulation=true, const std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, const std::uint32_t fpSize=2048, const bool ownsAtomInvGen=false) /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:108: warning: The following parameters of RDKit::TopologicalTorsion::getTopologicalTorsionGenerator(const bool includeChirality=false, const uint32_t torsionAtomCount=4, AtomInvariantsGenerator *atomInvariantsGenerator=nullptr, const bool countSimulation=true, const std::vector< std::uint32_t > countBounds={1, 2, 4, 8}, const std::uint32_t fpSize=2048, const bool ownsAtomInvGen=false) are not documented: parameter 'countSimulation' /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:33: warning: argument 'useCountSimulation' of command @param is not found in the argument list of RDKit::TopologicalTorsion::TopologicalTorsionArguments< OutputType >::TopologicalTorsionArguments(const bool includeChirality, const uint32_t torsionAtomCount, const bool countSimulation, const std::vector< std::uint32_t > countBounds, const std::uint32_t fpSize) /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:44: warning: The following parameters of RDKit::TopologicalTorsion::TopologicalTorsionArguments::TopologicalTorsionArguments(const bool includeChirality, const uint32_t torsionAtomCount, const bool countSimulation, const std::vector< std::uint32_t > countBounds, const std::uint32_t fpSize) are not documented: parameter 'countSimulation' /<>/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:57: warning: The following parameters of RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv::getBitId(FingerprintArguments< OutputType > *arguments, const std::vector< std::uint32_t > *atomInvariants, const std::vector< std::uint32_t > *bondInvariants, const AdditionalOutput *AdditionalOutput, const bool hashResults=false) const are not documented: parameter 'AdditionalOutput' ng docs for compound RDKit::MolStandardize::NoAtomValidation... Generating docs for compound RDKit::MolStandardize::Normalizer... Generating docs for nested compound RDKit::MolStandardize::Normalizer::Product... Generating docs for compound RDKit::MolStandardize::RDKitValidation... Generating docs for compound RDKit::MolStandardize::Reionizer... Generating docs for compound RDKit::MolStandardize::TautomerCanonicalizer... Generating docs for compound RDKit::MolStandardize::TautomerCatalogEntry... Generating docs for compound RDKit::MolStandardize::TautomerCatalogParams... Generating docs for compound RDKit::MolStandardize::TautomerEnumerator... Generating docs for compound RDKit::MolStandardize::TautomerTransform... Generating docs for compound RDKit::MolStandardize::TransformCatalogEntry... Generating docs for compound RDKit::MolStandardize::TransformCatalogParams... Generating docs for compound RDKit::MolStandardize::Uncharger... Generating docs for compound RDKit::MolStandardize::ValidationErrorInfo... Generating docs for compound RDKit::MolStandardize::ValidationMethod... Generating docs for namespace RDKit::MorganFingerprint Generating docs for compound RDKit::MorganFingerprint::MorganArguments... Generating docs for compound RDKit::MorganFingerprint::MorganAtomEnv... Generating docs for compound RDKit::MorganFingerprint::MorganAtomInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganBondInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganEnvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganFeatureAtomInvGenerator... Generating docs for namespace RDKit::MorganFingerprints Generating docs for compound RDKit::MorganFingerprints::ss_matcher... Generating docs for namespace RDKit::PicklerOps Generating docs for namespace RDKit::RDKitFP Generating docs for compound RDKit::RDKitFP::RDKitFPArguments... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomEnv... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomInvGenerator... Generating docs for compound RDKit::RDKitFP::RDKitFPEnvGenerator... Generating docs for namespace RDKit::RDKitFPUtils Generating docs for namespace RDKit::RDTypeTag Generating docs for namespace RDKit::RDTypeTag::detail Generating docs for compound RDKit::RDTypeTag::detail::Value... Generating docs for namespace RDKit::ReactionRunnerUtils Generating docs for namespace RDKit::ReducedGraphs Generating docs for namespace RDKit::RxnOps Generating docs for namespace RDKit::SGroupParsing Generating docs for namespace RDKit::SGroupWriting Generating docs for namespace RDKit::SLNParse Generating docs for compound RDKit::SLNParse::AttribType... Generating docs for namespace RDKit::SmartsWrite Generating docs for namespace RDKit::SmilesWrite Generating docs for namespace RDKit::StructureCheck Generating docs for compound RDKit::StructureCheck::AugmentedAtom... Generating docs for compound RDKit::StructureCheck::ChargeFix... Generating docs for compound RDKit::StructureCheck::IncEntry... Generating docs for compound RDKit::StructureCheck::Ligand... Generating docs for compound RDKit::StructureCheck::Neighbourhood... Generating docs for compound RDKit::StructureCheck::PathEntry... Generating docs for compound RDKit::StructureCheck::StructChecker... Generating docs for compound RDKit::StructureCheck::StructCheckerOptions... Generating docs for compound RDKit::StructureCheck::StructCheckTautomer... Generating docs for namespace RDKit::Subgraphs Generating docs for namespace RDKit::SubstanceGroupChecks Generating docs for namespace RDKit::TopologicalTorsion Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionArguments... Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv... Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionEnvGenerator... Generating docs for namespace RDKit::UFF Generating docs for namespace RDKit::UFF::Tools Generating docs for compound RDKit::UFF::Tools::DefaultTorsionBondSmarts... Generating docs for namespace RDKit::Utils Generating docs fo/<>/Code/SimDivPickers/HierarchicalClusterPicker.h:80: warning: The following parameters of RDPickers::HierarchicalClusterPicker::pick(const double *distMat, unsigned int poolSize, unsigned int pickSize) const are not documented: parameter 'distMat' /<>/Code/SimDivPickers/MaxMinPicker.h:55: warning: argument 'firstPicks' of command @param is not found in the argument list of RDPickers::MaxMinPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const /<>/Code/SimDivPickers/MaxMinPicker.h:55: warning: argument 'seed' of command @param is not found in the argument list of RDPickers::MaxMinPicker::lazyPick(T &func, unsigned int poolSize, unsigned int pickSize) const r compound RDKit::Utils::LocaleSwitcher... Generating docs for namespace RDKit::Utils::detail Generating docs for namespace RDLog Generating docs for namespace RDNumeric Generating docs for compound RDNumeric::Matrix... Generating docs for compound RDNumeric::SquareMatrix... Generating docs for compound RDNumeric::SymmMatrix... Generating docs for compound RDNumeric::Vector... Generating docs for namespace RDNumeric::Alignments Generating docs for namespace RDNumeric::EigenSolvers Generating docs for namespace RDPickers Generating docs for compound RDPickers::DistPicker... Generating docs for compound RDPickers::HierarchicalClusterPicker... Generating docs for compound RDPickers::MaxMinPicker... Generating docs for compound RDPickers::MaxMinPickInfo... Generating docs for namespace RingUtils Generating docs for namespace SmilesParseOps Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating module index... Generating namespace index... Generating namespace member index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... lookup cache used 16473/65536 hits=145073 misses=17866 finished... (cd /<>/Docs/Book; RDBASE=/<> /usr/bin/make html) make[2]: Entering directory '/<>/Docs/Book' mkdir -p _build/html/cppapi cp -r /<>/Code/docs/* _build/html/cppapi sphinx-build -b html -d _build/doctrees . _build/html Running Sphinx v1.8.5 building [mo]: targets for 0 po files that are out of date building [html]: targets for 305 source files that are out of date updating environment: 305 added, 0 changed, 0 removed reading sources... [ 0%] BackwardsIncompatibleChanges reading sources... [ 0%] Cartridge reading sources... [ 0%] Cookbook reading sources... [ 1%] GettingStartedInPython reading sources... [ 1%] Install reading sources... [ 1%] Overview reading sources... [ 2%] RDKit_Book reading sources... [ 2%] api-docs reading sources... [ 2%] index reading sources... [ 3%] source/modules reading sources... [ 3%] source/rdkit reading sources... [ 3%] source/rdkit.Avalon reading sources... [ 4%] source/rdkit.Avalon.pyAvalonTools reading sources... [ 4%] source/rdkit.Chem reading sources... [ 4%] source/rdkit.Chem.AllChem reading sources... [ 5%] source/rdkit.Chem.AtomPairs reading sources... [ 5%] source/rdkit.Chem.AtomPairs.Pairs reading sources... [ 5%] source/rdkit.Chem.AtomPairs.Sheridan reading sources... [ 6%] source/rdkit.Chem.AtomPairs.Torsions reading sources... [ 6%] source/rdkit.Chem.AtomPairs.Utils reading sources... [ 6%] source/rdkit.Chem.BRICS reading sources... [ 7%] source/rdkit.Chem.BuildFragmentCatalog reading sources... [ 7%] source/rdkit.Chem.ChemUtils reading sources... [ 7%] source/rdkit.Chem.ChemUtils.AlignDepict reading sources... [ 8%] source/rdkit.Chem.ChemUtils.BulkTester reading sources... [ 8%] source/rdkit.Chem.ChemUtils.DescriptorUtilities reading sources... [ 8%] source/rdkit.Chem.ChemUtils.SDFToCSV reading sources... [ 9%] source/rdkit.Chem.ChemUtils.TemplateExpand reading sources... [ 9%] source/rdkit.Chem.ChemicalFeatures reading sources... [ 9%] source/rdkit.Chem.ChemicalForceFields reading sources... [ 10%] source/rdkit.Chem.Crippen reading sources... [ 10%] source/rdkit.Chem.DSViewer reading sources... [ 10%] source/rdkit.Chem.Descriptors reading sources... [ 11%] source/rdkit.Chem.Descriptors3D reading sources... [ 11%] source/rdkit.Chem.Draw reading sources... [ 11%] source/rdkit.Chem.Draw.IPythonConsole reading sources... [ 12%] source/rdkit.Chem.Draw.MolDrawing reading sources... [ 12%] source/rdkit.Chem.Draw.SimilarityMaps reading sources... [ 12%] source/rdkit.Chem.Draw.aggCanvas reading sources... [ 13%] source/rdkit.Chem.Draw.cairoCanvas reading sources... [ 13%] source/rdkit.Chem.Draw.canvasbase reading sources... [ 13%] source/rdkit.Chem.Draw.mplCanvas reading sources... [ 14%] source/rdkit.Chem.Draw.qtCanvas reading sources... [ 14%] source/rdkit.Chem.Draw.rdMolDraw2D reading sources... [ 14%] source/rdkit.Chem.EState reading sources... [ 15%] source/rdkit.Chem.EState.AtomTypes reading sources... [ 15%] source/rdkit.Chem.EState.EState reading sources... [ 15%] source/rdkit.Chem.EState.EState_VSA reading sources... [ 16%] source/rdkit.Chem.EState.Fingerprinter reading sources... [ 16%] source/rdkit.Chem.EnumerateHeterocycles reading sources... [ 16%] source/rdkit.Chem.EnumerateStereoisomers reading sources... [ 17%] source/rdkit.Chem.FastSDMolSupplier reading sources... [ 17%] source/rdkit.Chem.FeatFinderCLI reading sources... [ 17%] source/rdkit.Chem.FeatMaps reading sources... [ 18%] source/rdkit.Chem.FeatMaps.FeatMapParser reading sources... [ 18%] source/rdkit.Chem.FeatMaps.FeatMapPoint reading sources... [ 18%] source/rdkit.Chem.FeatMaps.FeatMapUtils reading sources... [ 19%] source/rdkit.Chem.FeatMaps.FeatMaps reading sources... [ 19%] source/rdkit.Chem.Features reading sources... [ 19%] source/rdkit.Chem.Features.FeatDirUtilsRD reading sources... [ 20%] source/rdkit.Chem.Features.ShowFeats reading sources... [ 20%] source/rdkit.Chem.FilterCatalog reading sources... [ 20%] source/rdkit.Chem.Fingerprints reading sources... [ 20%] source/rdkit.Chem.Fingerprints.ClusterMols reading sources... [ 21%] source/rdkit.Chem.Fingerprints.DbFpSupplier reading sources... [ 21%] source/rdkit.Chem.Fingerprints.FingerprintMols reading sources... [ 21%] source/rdkit.Chem.Fingerprints.MolSimilarity reading sources... [ 22%] source/rdkit.Chem.Fingerprints.SimilarityScreener reading sources... [ 22%] source/rdkit.Chem.Fraggle reading sources... [ 22%] source/rdkit.Chem.Fraggle.FraggleSim reading sources... [ 23%] source/rdkit.Chem.FragmentCatalog reading sources... [ 23%] source/rdkit.Chem.FragmentMatcher reading sources... [ 23%] source/rdkit.Chem.Fragments reading sources... [ 24%] source/rdkit.Chem.FunctionalGroups reading sources... [ 24%] source/rdkit.Chem.GraphDescriptors reading sources... [ 24%] source/rdkit.Chem.Graphs reading sources... [ 25%] source/rdkit.Chem.Lipinski reading sources... [ 25%] source/rdkit.Chem.MACCSkeys reading sources... [ 25%] source/rdkit.Chem.MCS reading sources... [ 26%] source/rdkit.Chem.MolCatalog reading sources... [ 26%] source/rdkit.Chem.MolDb reading sources... [ 26%] source/rdkit.Chem.MolDb.FingerprintUtils reading sources... [ 27%] source/rdkit.Chem.MolDb.Loader reading sources... [ 27%] source/rdkit.Chem.MolDb.Loader_orig reading sources... [ 27%] source/rdkit.Chem.MolDb.Loader_sa reading sources... [ 28%] source/rdkit.Chem.MolKey reading sources... [ 28%] source/rdkit.Chem.MolKey.InchiInfo reading sources... [ 28%] source/rdkit.Chem.MolKey.MolKey reading sources... [ 29%] source/rdkit.Chem.MolStandardize reading sources... [ 29%] source/rdkit.Chem.MolStandardize.rdMolStandardize reading sources... [ 29%] source/rdkit.Chem.MolSurf reading sources... [ 30%] source/rdkit.Chem.PandasTools reading sources... [ 30%] source/rdkit.Chem.PeriodicTable reading sources... [ 30%] source/rdkit.Chem.Pharm2D reading sources... [ 31%] source/rdkit.Chem.Pharm2D.Generate reading sources... [ 31%] source/rdkit.Chem.Pharm2D.Gobbi_Pharm2D reading sources... [ 31%] source/rdkit.Chem.Pharm2D.LazyGenerator reading sources... [ 32%] source/rdkit.Chem.Pharm2D.Matcher reading sources... [ 32%] source/rdkit.Chem.Pharm2D.SigFactory reading sources... [ 32%] source/rdkit.Chem.Pharm2D.Utils reading sources... [ 33%] source/rdkit.Chem.Pharm3D reading sources... [ 33%] source/rdkit.Chem.Pharm3D.EmbedLib reading sources... [ 33%] source/rdkit.Chem.Pharm3D.ExcludedVolume reading sources... [ 34%] source/rdkit.Chem.Pharm3D.Pharmacophore reading sources... [ 34%] source/rdkit.Chem.PropertyMol reading sources... [ 34%] source/rdkit.Chem.PyMol reading sources... [ 35%] source/rdkit.Chem.QED reading sources... [ 35%] source/rdkit.Chem.Randomize reading sources... [ 35%] source/rdkit.Chem.Recap reading sources... [ 36%] source/rdkit.Chem.ReducedGraphs reading sources... [ 36%] source/rdkit.Chem.SATIS reading sources... [ 36%] source/rdkit.Chem.SaltRemover reading sources... [ 37%] source/rdkit.Chem.Scaffolds reading sources... [ 37%] source/rdkit.Chem.Scaffolds.MurckoScaffold reading sources... [ 37%] source/rdkit.Chem.Scaffolds.ScaffoldTree reading sources... [ 38%] source/rdkit.Chem.ShowMols reading sources... [ 38%] source/rdkit.Chem.SimpleEnum reading sources... [ 38%] source/rdkit.Chem.SimpleEnum.Enumerator reading sources... [ 39%] source/rdkit.Chem.Subshape reading sources... [ 39%] source/rdkit.Chem.Subshape.BuilderUtils reading sources... [ 39%] source/rdkit.Chem.Subshape.SubshapeAligner reading sources... [ 40%] source/rdkit.Chem.Subshape.SubshapeBuilder reading sources... [ 40%] source/rdkit.Chem.Subshape.SubshapeObjects reading sources... [ 40%] source/rdkit.Chem.Subshape.testCombined reading sources... [ 40%] source/rdkit.Chem.Suppliers reading sources... [ 41%] source/rdkit.Chem.Suppliers.DbMolSupplier reading sources... [ 41%] source/rdkit.Chem.Suppliers.MolSupplier reading sources... [ 41%] source/rdkit.Chem.TemplateAlign reading sources... [ 42%] source/rdkit.Chem.TorsionFingerprints reading sources... [ 42%] source/rdkit.Chem.fmcs reading sources... [ 42%] source/rdkit.Chem.fmcs.fmcs reading sources... [ 43%] source/rdkit.Chem.inchi reading sources... [ 43%] source/rdkit.Chem.rdChemReactions reading sources... [ 43%] source/rdkit.Chem.rdChemicalFeatures reading sources... [ 44%] source/rdkit.Chem.rdCoordGen reading sources... [ 44%] source/rdkit.Chem.rdDepictor reading sources... [ 44%] source/rdkit.Chem.rdDistGeom reading sources... [ 45%] source/rdkit.Chem.rdFMCS reading sources... [ 45%] source/rdkit.Chem.rdFingerprintGenerator reading sources... [ 45%] source/rdkit.Chem.rdForceFieldHelpers reading sources... [ 46%] source/rdkit.Chem.rdFreeSASA reading sources... [ 46%] source/rdkit.Chem.rdMMPA reading sources... [ 46%] source/rdkit.Chem.rdMolAlign reading sources... [ 47%] source/rdkit.Chem.rdMolCatalog reading sources... [ 47%] source/rdkit.Chem.rdMolChemicalFeatures reading sources... [ 47%] source/rdkit.Chem.rdMolDescriptors reading sources... [ 48%] source/rdkit.Chem.rdMolHash reading sources... [ 48%] source/rdkit.Chem.rdMolInterchange reading sources... [ 48%] source/rdkit.Chem.rdMolTransforms reading sources... [ 49%] source/rdkit.Chem.rdPartialCharges reading sources... [ 49%] source/rdkit.Chem.rdRGroupDecomposition reading sources... [ 49%] source/rdkit.Chem.rdReducedGraphs reading sources... [ 50%] source/rdkit.Chem.rdSLNParse reading sources... [ 50%] source/rdkit.Chem.rdShapeHelpers reading sources... [ 50%] source/rdkit.Chem.rdStructChecker reading sources... [ 51%] source/rdkit.Chem.rdSubstructLibrary reading sources... [ 51%] source/rdkit.Chem.rdchem reading sources... [ 51%] source/rdkit.Chem.rdfiltercatalog reading sources... [ 52%] source/rdkit.Chem.rdfragcatalog reading sources... [ 52%] source/rdkit.Chem.rdinchi reading sources... [ 52%] source/rdkit.Chem.rdmolfiles reading sources... [ 53%] source/rdkit.Chem.rdmolops reading sources... [ 53%] source/rdkit.Chem.rdqueries reading sources... [ 53%] source/rdkit.Chem.rdtrajectory reading sources... [ 54%] source/rdkit.DataManip reading sources... [ 54%] source/rdkit.DataManip.Metric reading sources... [ 54%] source/rdkit.DataManip.Metric.rdMetricMatrixCalc reading sources... [ 55%] source/rdkit.DataStructs reading sources... [ 55%] source/rdkit.DataStructs.BitEnsemble reading sources... [ 55%] source/rdkit.DataStructs.BitEnsembleDb reading sources... [ 56%] source/rdkit.DataStructs.BitUtils reading sources... [ 56%] source/rdkit.DataStructs.HierarchyVis reading sources... [ 56%] source/rdkit.DataStructs.LazySignature reading sources... [ 57%] source/rdkit.DataStructs.TopNContainer reading sources... [ 57%] source/rdkit.DataStructs.VectCollection reading sources... [ 57%] source/rdkit.DataStructs.cDataStructs reading sources... [ 58%] source/rdkit.Dbase reading sources... [ 58%] source/rdkit.Dbase.DbConnection reading sources... [ 58%] source/rdkit.Dbase.DbInfo reading sources... [ 59%] source/rdkit.Dbase.DbModule reading sources... [ 59%] source/rdkit.Dbase.DbReport reading sources... [ 59%] source/rdkit.Dbase.DbResultSet reading sources... [ 60%] source/rdkit.Dbase.DbUtils reading sources... [ 60%] source/rdkit.Dbase.StorageUtils reading sources... [ 60%] source/rdkit.DistanceGeometry reading sources... [ 60%] source/rdkit.DistanceGeometry.DistGeom reading sources... [ 61%] source/rdkit.ForceField reading sources... [ 61%] source/rdkit.ForceField.rdForceField reading sources... [ 61%] source/rdkit.Geometry reading sources... [ 62%] source/rdkit.Geometry.rdGeometry reading sources... [ 62%] source/rdkit.ML reading sources... [ 62%] source/rdkit.ML.AnalyzeComposite reading sources... [ 63%] source/rdkit.ML.BuildComposite reading sources... [ 63%] source/rdkit.ML.Cluster reading sources... [ 63%] source/rdkit.ML.Cluster.Butina reading sources... [ 64%] source/rdkit.ML.Cluster.ClusterUtils reading sources... [ 64%] source/rdkit.ML.Cluster.ClusterVis reading sources... [ 64%] source/rdkit.ML.Cluster.Clustering reading sources... [ 65%] source/rdkit.ML.Cluster.Clusters reading sources... [ 65%] source/rdkit.ML.Cluster.Murtagh reading sources... [ 65%] source/rdkit.ML.Cluster.Resemblance reading sources... [ 66%] source/rdkit.ML.Cluster.Standardize reading sources... [ 66%] source/rdkit.ML.Composite reading sources... [ 66%] source/rdkit.ML.Composite.AdjustComposite reading sources... [ 67%] source/rdkit.ML.Composite.BayesComposite reading sources... [ 67%] source/rdkit.ML.Composite.Composite reading sources... [ 67%] source/rdkit.ML.CompositeRun reading sources... [ 68%] source/rdkit.ML.Data reading sources... [ 68%] source/rdkit.ML.Data.DataUtils reading sources... [ 68%] source/rdkit.ML.Data.FindQuantBounds reading sources... [ 69%] source/rdkit.ML.Data.MLData reading sources... [ 69%] source/rdkit.ML.Data.Quantize reading sources... [ 69%] source/rdkit.ML.Data.SplitData reading sources... [ 70%] source/rdkit.ML.Data.Stats reading sources... [ 70%] source/rdkit.ML.Data.Transforms reading sources... [ 70%] source/rdkit.ML.DecTree reading sources... [ 71%] source/rdkit.ML.DecTree.BuildQuantTree reading sources... [ 71%] source/rdkit.ML.DecTree.BuildSigTree reading sources... [ 71%] source/rdkit.ML.DecTree.CrossValidate reading sources... [ 72%] source/rdkit.ML.DecTree.DecTree reading sources... [ 72%] source/rdkit.ML.DecTree.Forest reading sources... [ 72%] source/rdkit.ML.DecTree.ID3 reading sources... [ 73%] source/rdkit.ML.DecTree.PruneTree reading sources... [ 73%] source/rdkit.ML.DecTree.QuantTree reading sources... [ 73%] source/rdkit.ML.DecTree.SigTree reading sources... [ 74%] source/rdkit.ML.DecTree.Tree reading sources... [ 74%] source/rdkit.ML.DecTree.TreeUtils reading sources... [ 74%] source/rdkit.ML.DecTree.TreeVis reading sources... [ 75%] source/rdkit.ML.DecTree.randomtest reading sources... [ 75%] source/rdkit.ML.Descriptors reading sources... [ 75%] source/rdkit.ML.Descriptors.CompoundDescriptors reading sources... [ 76%] source/rdkit.ML.Descriptors.Descriptors reading sources... [ 76%] source/rdkit.ML.Descriptors.MoleculeDescriptors reading sources... [ 76%] source/rdkit.ML.Descriptors.Parser reading sources... [ 77%] source/rdkit.ML.EnrichPlot reading sources... [ 77%] source/rdkit.ML.GrowComposite reading sources... [ 77%] source/rdkit.ML.InfoTheory reading sources... [ 78%] source/rdkit.ML.InfoTheory.BitClusterer reading sources... [ 78%] source/rdkit.ML.InfoTheory.BitRank reading sources... [ 78%] source/rdkit.ML.InfoTheory.entropy reading sources... [ 79%] source/rdkit.ML.InfoTheory.rdInfoTheory reading sources... [ 79%] source/rdkit.ML.KNN reading sources... [ 79%] source/rdkit.ML.KNN.CrossValidate reading sources... [ 80%] source/rdkit.ML.KNN.DistFunctions reading sources... [ 80%] source/rdkit.ML.KNN.KNNClassificationModel reading sources... [ 80%] source/rdkit.ML.KNN.KNNModel reading sources... [ 80%] source/rdkit.ML.KNN.KNNRegressionModel reading sources... [ 81%] source/rdkit.ML.MLUtils reading sources... [ 81%] source/rdkit.ML.MLUtils.VoteImg reading sources... [ 81%] source/rdkit.ML.MatOps reading sources... [ 82%] source/rdkit.ML.ModelPackage reading sources... [ 82%] source/rdkit.ML.ModelPackage.PackageUtils reading sources... [ 82%] source/rdkit.ML.ModelPackage.Packager reading sources... [ 83%] source/rdkit.ML.NaiveBayes reading sources... [ 83%] source/rdkit.ML.NaiveBayes.ClassificationModel reading sources... [ 83%] source/rdkit.ML.NaiveBayes.CrossValidate reading sources... [ 84%] source/rdkit.ML.Neural reading sources... [ 84%] source/rdkit.ML.Neural.ActFuncs reading sources... [ 84%] source/rdkit.ML.Neural.CrossValidate reading sources... [ 85%] source/rdkit.ML.Neural.NetNode reading sources... [ 85%] source/rdkit.ML.Neural.Network reading sources... [ 85%] source/rdkit.ML.Neural.Trainers reading sources... [ 86%] source/rdkit.ML.SLT reading sources... [ 86%] source/rdkit.ML.SLT.Risk reading sources... [ 86%] source/rdkit.ML.Scoring reading sources... [ 87%] source/rdkit.ML.Scoring.Scoring reading sources... [ 87%] source/rdkit.ML.ScreenComposite reading sources... [ 87%] source/rdkit.ML.files reading sources... [ 88%] source/rdkit.Numerics reading sources... [ 88%] source/rdkit.Numerics.rdAlignment reading sources... [ 88%] source/rdkit.RDConfig reading sources... [ 89%] source/rdkit.RDLogger reading sources... [ 89%] source/rdkit.RDPaths reading sources... [ 89%] source/rdkit.RDRandom reading sources... [ 90%] source/rdkit.SimDivFilters reading sources... [ 90%] source/rdkit.SimDivFilters.SimilarityPickers reading sources... [ 90%] source/rdkit.SimDivFilters.rdSimDivPickers reading sources... [ 91%] source/rdkit.TestRunner reading sources... [ 91%] source/rdkit.VLib reading sources... [ 91%] source/rdkit.VLib.Filter reading sources... [ 92%] source/rdkit.VLib.Node reading sources... [ 92%] source/rdkit.VLib.NodeLib reading sources... [ 92%] source/rdkit.VLib.NodeLib.DbMolSupply reading sources... [ 93%] source/rdkit.VLib.NodeLib.DbPickleSupplier reading sources... [ 93%] source/rdkit.VLib.NodeLib.SDSupply reading sources... [ 93%] source/rdkit.VLib.NodeLib.SmartsMolFilter reading sources... [ 94%] source/rdkit.VLib.NodeLib.SmartsRemover reading sources... [ 94%] source/rdkit.VLib.NodeLib.SmilesDupeFilter reading sources... [ 94%] source/rdkit.VLib.NodeLib.SmilesOutput reading sources... [ 95%] source/rdkit.VLib.NodeLib.SmilesSupply reading sources... [ 95%] source/rdkit.VLib.NodeLib.demo reading sources... [ 95%] source/rdkit.VLib.Output reading sources... [ 96%] source/rdkit.VLib.Supply reading sources... [ 96%] source/rdkit.VLib.Transform reading sources... [ 96%] source/rdkit.rdBase reading sources... [ 97%] source/rdkit.six reading sources... [ 97%] source/rdkit.utils reading sources... [ 97%] source/rdkit.utils.cactvs reading sources... [ 98%] source/rdkit.utils.chemdraw reading sources... [ 98%] source/rdkit.utils.chemdraw_qax reading sources... [ 98%] source/rdkit.utils.chemutils reading sources... [ 99%] source/rdkit.utils.comhack reading sources... [ 99%] source/rdkit.utils.fileutils reading sources... [ 99%] source/rdkit.utils.listutils reading sources... [100%] source/rdkit.utils.spiral /usr/lib/python3/dist-packages/recommonmark/parser.py:280: UserWarning: Unsupported inline type Hardbreak warn("Unsupported inline type " + inline.t) /<>/Docs/Book/GettingStartedInPython.rst:2725: WARNING: Block quote ends without a blank line; unexpected unindent. WARNING: autodoc: failed to import module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Avalon' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Avalon.pyAvalonTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AllChem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Pairs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Sheridan' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Torsions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.BRICS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.BuildFragmentCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.AlignDepict' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.BulkTester' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.DescriptorUtilities' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.SDFToCSV' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.TemplateExpand' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemicalForceFields' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Crippen' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.DSViewer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Descriptors3D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.IPythonConsole' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.MolDrawing' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.SimilarityMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.aggCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.cairoCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.canvasbase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.mplCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.qtCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.rdMolDraw2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.AtomTypes' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.EState' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.EState_VSA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.Fingerprinter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EnumerateHeterocycles' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EnumerateStereoisomers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FastSDMolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatFinderCLI' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapParser' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapPoint' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features.FeatDirUtilsRD' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features.ShowFeats' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FilterCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.ClusterMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.DbFpSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.FingerprintMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.MolSimilarity' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.SimilarityScreener' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fraggle' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fraggle.FraggleSim' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FragmentCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FragmentMatcher' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fragments' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FunctionalGroups' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.GraphDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Graphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Lipinski' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MACCSkeys' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MCS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.FingerprintUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_orig' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_sa' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey.InchiInfo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey.MolKey' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolStandardize.rdMolStandardize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolSurf' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PandasTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PeriodicTable' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Generate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Gobbi_Pharm2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.LazyGenerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Matcher' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.SigFactory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.EmbedLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.ExcludedVolume' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.Pharmacophore' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PropertyMol' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PyMol' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.QED' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Randomize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Recap' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ReducedGraphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SATIS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SaltRemover' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds.MurckoScaffold' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds.ScaffoldTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ShowMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SimpleEnum' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SimpleEnum.Enumerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.BuilderUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeAligner' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeBuilder' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeObjects' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.testCombined' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers.DbMolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers.MolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.TemplateAlign' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.TorsionFingerprints' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.fmcs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.fmcs.fmcs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.inchi' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdChemReactions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdChemicalFeatures.rst:2: WARNING: Title underline too short. rdkit.Chem.rdChemicalFeatures module ================================= WARNING: autodoc: failed to import module 'Chem.rdChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdCoordGen' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDepictor' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDistGeom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFMCS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFingerprintGenerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdForceFieldHelpers.rst:2: WARNING: Title underline too short. rdkit.Chem.rdForceFieldHelpers module ================================= WARNING: autodoc: failed to import module 'Chem.rdForceFieldHelpers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFreeSASA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMMPA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolAlign' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolChemicalFeatures.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolChemicalFeatures module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolDescriptors.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolDescriptors module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolHash' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolInterchange.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolInterchange module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolInterchange' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolTransforms' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdPartialCharges.rst:2: WARNING: Title underline too short. rdkit.Chem.rdPartialCharges module ================================= WARNING: autodoc: failed to import module 'Chem.rdPartialCharges' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdRGroupDecomposition.rst:2: WARNING: Title underline too short. rdkit.Chem.rdRGroupDecomposition module ================================= WARNING: autodoc: failed to import module 'Chem.rdRGroupDecomposition' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdReducedGraphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdSLNParse' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdShapeHelpers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdStructChecker' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdSubstructLibrary.rst:2: WARNING: Title underline too short. rdkit.Chem.rdSubstructLibrary module ================================= WARNING: autodoc: failed to import module 'Chem.rdSubstructLibrary' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdchem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdfiltercatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdfragcatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdinchi' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdmolfiles' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdmolops' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdqueries' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdtrajectory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataManip' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataManip.Metric' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataManip.Metric.rdMetricMatrixCalc' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitEnsemble' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitEnsembleDb' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.HierarchyVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.LazySignature' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.TopNContainer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.VectCollection' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.cDataStructs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbConnection' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbInfo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbModule' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbReport' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbResultSet' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.StorageUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DistanceGeometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DistanceGeometry.DistGeom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ForceField.rst:5: WARNING: Block quote ends without a blank line; unexpected unindent. WARNING: autodoc: failed to import module 'ForceField' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ForceField.rdForceField' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Geometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Geometry.rdGeometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.AnalyzeComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.BuildComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Butina' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.ClusterUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.ClusterVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Clustering' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Clusters' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Murtagh' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Resemblance' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Standardize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.AdjustComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.BayesComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.Composite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.CompositeRun' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.DataUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.FindQuantBounds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.MLData' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Quantize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.SplitData' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Stats' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Transforms' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.BuildQuantTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.BuildSigTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.DecTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.Forest' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.ID3' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.PruneTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.QuantTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.SigTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.Tree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.TreeUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.TreeVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.randomtest' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.CompoundDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.MoleculeDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.Parser' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.EnrichPlot' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.GrowComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.BitClusterer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.BitRank' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.entropy' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.InfoTheory.rdInfoTheory.rst:2: WARNING: Title underline too short. rdkit.ML.InfoTheory.rdInfoTheory module ====================================== WARNING: autodoc: failed to import module 'ML.InfoTheory.rdInfoTheory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.DistFunctions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNClassificationModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNRegressionModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MLUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MLUtils.VoteImg' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MatOps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage.PackageUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage.Packager' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes.ClassificationModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.ActFuncs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.NetNode' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.Network' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.Trainers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.SLT' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.SLT.Risk' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Scoring' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Scoring.Scoring' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ScreenComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.files' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Numerics' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Numerics.rdAlignment' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDConfig' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDLogger' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDPaths' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDRandom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters.SimilarityPickers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters.rdSimDivPickers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'TestRunner' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Filter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Node' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.DbMolSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.DbPickleSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SDSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsMolFilter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsRemover' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesDupeFilter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesOutput' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.demo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Output' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Supply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Transform' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'rdBase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'six' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.cactvs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.chemdraw' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.chemdraw_qax' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.chemutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.comhack' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.fileutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.listutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.spiral' from module 'rdkit'; the following exception was raised: No module named 'rdkit' looking for now-outdated files... none found pickling environment... done checking consistency... /<>/Docs/Book/source/modules.rst: WARNING: document isn't included in any toctree done preparing documents... done writing output... [ 0%] BackwardsIncompatibleChanges writing output... [ 0%] Cartridge writing output... [ 0%] Cookbook writing output... [ 1%] GettingStartedInPython writing output... [ 1%] Install writing output... [ 1%] Overview writing output... [ 2%] RDKit_Book writing output... [ 2%] api-docs writing output... [ 2%] index writing output... [ 3%] source/modules writing output... [ 3%] source/rdkit writing output... [ 3%] source/rdkit.Avalon writing output... [ 4%] source/rdkit.Avalon.pyAvalonTools writing output... [ 4%] source/rdkit.Chem writing output... [ 4%] source/rdkit.Chem.AllChem writing output... [ 5%] source/rdkit.Chem.AtomPairs writing output... [ 5%] source/rdkit.Chem.AtomPairs.Pairs writing output... [ 5%] source/rdkit.Chem.AtomPairs.Sheridan writing output... [ 6%] source/rdkit.Chem.AtomPairs.Torsions writing output... [ 6%] source/rdkit.Chem.AtomPairs.Utils writing output... [ 6%] source/rdkit.Chem.BRICS writing output... [ 7%] source/rdkit.Chem.BuildFragmentCatalog writing output... [ 7%] source/rdkit.Chem.ChemUtils writing output... [ 7%] source/rdkit.Chem.ChemUtils.AlignDepict writing output... [ 8%] source/rdkit.Chem.ChemUtils.BulkTester writing output... [ 8%] source/rdkit.Chem.ChemUtils.DescriptorUtilities writing output... [ 8%] source/rdkit.Chem.ChemUtils.SDFToCSV writing output... [ 9%] source/rdkit.Chem.ChemUtils.TemplateExpand writing output... [ 9%] source/rdkit.Chem.ChemicalFeatures writing output... [ 9%] source/rdkit.Chem.ChemicalForceFields writing output... [ 10%] source/rdkit.Chem.Crippen writing output... [ 10%] source/rdkit.Chem.DSViewer writing output... [ 10%] source/rdkit.Chem.Descriptors writing output... [ 11%] source/rdkit.Chem.Descriptors3D writing output... [ 11%] source/rdkit.Chem.Draw writing output... [ 11%] source/rdkit.Chem.Draw.IPythonConsole writing output... [ 12%] source/rdkit.Chem.Draw.MolDrawing writing output... [ 12%] source/rdkit.Chem.Draw.SimilarityMaps writing output... [ 12%] source/rdkit.Chem.Draw.aggCanvas writing output... [ 13%] source/rdkit.Chem.Draw.cairoCanvas writing output... [ 13%] source/rdkit.Chem.Draw.canvasbase writing output... [ 13%] source/rdkit.Chem.Draw.mplCanvas writing output... [ 14%] source/rdkit.Chem.Draw.qtCanvas writing output... [ 14%] source/rdkit.Chem.Draw.rdMolDraw2D writing output... [ 14%] source/rdkit.Chem.EState writing output... [ 15%] source/rdkit.Chem.EState.AtomTypes writing output... [ 15%] source/rdkit.Chem.EState.EState writing output... [ 15%] source/rdkit.Chem.EState.EState_VSA writing output... [ 16%] source/rdkit.Chem.EState.Fingerprinter writing output... [ 16%] source/rdkit.Chem.EnumerateHeterocycles writing output... [ 16%] source/rdkit.Chem.EnumerateStereoisomers writing output... [ 17%] source/rdkit.Chem.FastSDMolSupplier writing output... [ 17%] source/rdkit.Chem.FeatFinderCLI writing output... [ 17%] source/rdkit.Chem.FeatMaps writing output... [ 18%] source/rdkit.Chem.FeatMaps.FeatMapParser writing output... [ 18%] source/rdkit.Chem.FeatMaps.FeatMapPoint writing output... [ 18%] source/rdkit.Chem.FeatMaps.FeatMapUtils writing output... [ 19%] source/rdkit.Chem.FeatMaps.FeatMaps writing output... [ 19%] source/rdkit.Chem.Features writing output... [ 19%] source/rdkit.Chem.Features.FeatDirUtilsRD writing output... [ 20%] source/rdkit.Chem.Features.ShowFeats writing output... [ 20%] source/rdkit.Chem.FilterCatalog writing output... [ 20%] source/rdkit.Chem.Fingerprints writing output... [ 20%] source/rdkit.Chem.Fingerprints.ClusterMols writing output... [ 21%] source/rdkit.Chem.Fingerprints.DbFpSupplier writing output... [ 21%] source/rdkit.Chem.Fingerprints.FingerprintMols writing output... [ 21%] source/rdkit.Chem.Fingerprints.MolSimilarity writing output... [ 22%] source/rdkit.Chem.Fingerprints.SimilarityScreener writing output... [ 22%] source/rdkit.Chem.Fraggle writing output... [ 22%] source/rdkit.Chem.Fraggle.FraggleSim writing output... [ 23%] source/rdkit.Chem.FragmentCatalog writing output... [ 23%] source/rdkit.Chem.FragmentMatcher writing output... [ 23%] source/rdkit.Chem.Fragments writing output... [ 24%] source/rdkit.Chem.FunctionalGroups writing output... [ 24%] source/rdkit.Chem.GraphDescriptors writing output... [ 24%] source/rdkit.Chem.Graphs writing output... [ 25%] source/rdkit.Chem.Lipinski writing output... [ 25%] source/rdkit.Chem.MACCSkeys writing output... [ 25%] source/rdkit.Chem.MCS writing output... [ 26%] source/rdkit.Chem.MolCatalog writing output... [ 26%] source/rdkit.Chem.MolDb writing output... [ 26%] source/rdkit.Chem.MolDb.FingerprintUtils writing output... [ 27%] source/rdkit.Chem.MolDb.Loader writing output... [ 27%] source/rdkit.Chem.MolDb.Loader_orig writing output... [ 27%] source/rdkit.Chem.MolDb.Loader_sa writing output... [ 28%] source/rdkit.Chem.MolKey writing output... [ 28%] source/rdkit.Chem.MolKey.InchiInfo writing output... [ 28%] source/rdkit.Chem.MolKey.MolKey writing output... [ 29%] source/rdkit.Chem.MolStandardize writing output... [ 29%] source/rdkit.Chem.MolStandardize.rdMolStandardize writing output... [ 29%] source/rdkit.Chem.MolSurf writing output... [ 30%] source/rdkit.Chem.PandasTools writing output... [ 30%] source/rdkit.Chem.PeriodicTable writing output... [ 30%] source/rdkit.Chem.Pharm2D writing output... [ 31%] source/rdkit.Chem.Pharm2D.Generate writing output... [ 31%] source/rdkit.Chem.Pharm2D.Gobbi_Pharm2D writing output... [ 31%] source/rdkit.Chem.Pharm2D.LazyGenerator writing output... [ 32%] source/rdkit.Chem.Pharm2D.Matcher writing output... [ 32%] source/rdkit.Chem.Pharm2D.SigFactory writing output... [ 32%] source/rdkit.Chem.Pharm2D.Utils writing output... [ 33%] source/rdkit.Chem.Pharm3D writing output... [ 33%] source/rdkit.Chem.Pharm3D.EmbedLib writing output... [ 33%] source/rdkit.Chem.Pharm3D.ExcludedVolume writing output... [ 34%] source/rdkit.Chem.Pharm3D.Pharmacophore writing output... [ 34%] source/rdkit.Chem.PropertyMol writing output... [ 34%] source/rdkit.Chem.PyMol writing output... [ 35%] source/rdkit.Chem.QED writing output... [ 35%] source/rdkit.Chem.Randomize writing output... [ 35%] source/rdkit.Chem.Recap writing output... [ 36%] source/rdkit.Chem.ReducedGraphs writing output... [ 36%] source/rdkit.Chem.SATIS writing output... [ 36%] source/rdkit.Chem.SaltRemover writing output... [ 37%] source/rdkit.Chem.Scaffolds writing output... [ 37%] source/rdkit.Chem.Scaffolds.MurckoScaffold writing output... [ 37%] source/rdkit.Chem.Scaffolds.ScaffoldTree writing output... [ 38%] source/rdkit.Chem.ShowMols writing output... [ 38%] source/rdkit.Chem.SimpleEnum writing output... [ 38%] source/rdkit.Chem.SimpleEnum.Enumerator writing output... [ 39%] source/rdkit.Chem.Subshape writing output... [ 39%] source/rdkit.Chem.Subshape.BuilderUtils writing output... [ 39%] source/rdkit.Chem.Subshape.SubshapeAligner writing output... [ 40%] source/rdkit.Chem.Subshape.SubshapeBuilder writing output... [ 40%] source/rdkit.Chem.Subshape.SubshapeObjects writing output... [ 40%] source/rdkit.Chem.Subshape.testCombined writing output... [ 40%] source/rdkit.Chem.Suppliers writing output... [ 41%] source/rdkit.Chem.Suppliers.DbMolSupplier writing output... [ 41%] source/rdkit.Chem.Suppliers.MolSupplier writing output... [ 41%] source/rdkit.Chem.TemplateAlign writing output... [ 42%] source/rdkit.Chem.TorsionFingerprints writing output... [ 42%] source/rdkit.Chem.fmcs writing output... [ 42%] source/rdkit.Chem.fmcs.fmcs writing output... [ 43%] source/rdkit.Chem.inchi writing output... [ 43%] source/rdkit.Chem.rdChemReactions writing output... [ 43%] source/rdkit.Chem.rdChemicalFeatures writing output... [ 44%] source/rdkit.Chem.rdCoordGen writing output... [ 44%] source/rdkit.Chem.rdDepictor writing output... [ 44%] source/rdkit.Chem.rdDistGeom writing output... [ 45%] source/rdkit.Chem.rdFMCS writing output... [ 45%] source/rdkit.Chem.rdFingerprintGenerator writing output... [ 45%] source/rdkit.Chem.rdForceFieldHelpers writing output... [ 46%] source/rdkit.Chem.rdFreeSASA writing output... [ 46%] source/rdkit.Chem.rdMMPA writing output... [ 46%] source/rdkit.Chem.rdMolAlign writing output... [ 47%] source/rdkit.Chem.rdMolCatalog writing output... [ 47%] source/rdkit.Chem.rdMolChemicalFeatures writing output... [ 47%] source/rdkit.Chem.rdMolDescriptors writing output... [ 48%] source/rdkit.Chem.rdMolHash writing output... [ 48%] source/rdkit.Chem.rdMolInterchange writing output... [ 48%] source/rdkit.Chem.rdMolTransforms writing output... [ 49%] source/rdkit.Chem.rdPartialCharges writing output... [ 49%] source/rdkit.Chem.rdRGroupDecomposition writing output... [ 49%] source/rdkit.Chem.rdReducedGraphs writing output... [ 50%] source/rdkit.Chem.rdSLNParse writing output... [ 50%] source/rdkit.Chem.rdShapeHelpers writing output... [ 50%] source/rdkit.Chem.rdStructChecker writing output... [ 51%] source/rdkit.Chem.rdSubstructLibrary writing output... [ 51%] source/rdkit.Chem.rdchem writing output... [ 51%] source/rdkit.Chem.rdfiltercatalog writing output... [ 52%] source/rdkit.Chem.rdfragcatalog writing output... [ 52%] source/rdkit.Chem.rdinchi writing output... [ 52%] source/rdkit.Chem.rdmolfiles writing output... [ 53%] source/rdkit.Chem.rdmolops writing output... [ 53%] source/rdkit.Chem.rdqueries writing output... [ 53%] source/rdkit.Chem.rdtrajectory writing output... [ 54%] source/rdkit.DataManip writing output... [ 54%] source/rdkit.DataManip.Metric writing output... [ 54%] source/rdkit.DataManip.Metric.rdMetricMatrixCalc writing output... [ 55%] source/rdkit.DataStructs writing output... [ 55%] source/rdkit.DataStructs.BitEnsemble writing output... [ 55%] source/rdkit.DataStructs.BitEnsembleDb writing output... [ 56%] source/rdkit.DataStructs.BitUtils writing output... [ 56%] source/rdkit.DataStructs.HierarchyVis writing output... [ 56%] source/rdkit.DataStructs.LazySignature writing output... [ 57%] source/rdkit.DataStructs.TopNContainer writing output... [ 57%] source/rdkit.DataStructs.VectCollection writing output... [ 57%] source/rdkit.DataStructs.cDataStructs writing output... [ 58%] source/rdkit.Dbase writing output... [ 58%] source/rdkit.Dbase.DbConnection writing output... [ 58%] source/rdkit.Dbase.DbInfo writing output... [ 59%] source/rdkit.Dbase.DbModule writing output... [ 59%] source/rdkit.Dbase.DbReport writing output... [ 59%] source/rdkit.Dbase.DbResultSet writing output... [ 60%] source/rdkit.Dbase.DbUtils writing output... [ 60%] source/rdkit.Dbase.StorageUtils writing output... [ 60%] source/rdkit.DistanceGeometry writing output... [ 60%] source/rdkit.DistanceGeometry.DistGeom writing output... [ 61%] source/rdkit.ForceField writing output... [ 61%] source/rdkit.ForceField.rdForceField writing output... [ 61%] source/rdkit.Geometry writing output... [ 62%] source/rdkit.Geometry.rdGeometry writing output... [ 62%] source/rdkit.ML writing output... [ 62%] source/rdkit.ML.AnalyzeComposite writing output... [ 63%] source/rdkit.ML.BuildComposite writing output... [ 63%] source/rdkit.ML.Cluster writing output... [ 63%] source/rdkit.ML.Cluster.Butina writing output... [ 64%] source/rdkit.ML.Cluster.ClusterUtils writing output... [ 64%] source/rdkit.ML.Cluster.ClusterVis writing output... [ 64%] source/rdkit.ML.Cluster.Clustering writing output... [ 65%] source/rdkit.ML.Cluster.Clusters writing output... [ 65%] source/rdkit.ML.Cluster.Murtagh writing output... [ 65%] source/rdkit.ML.Cluster.Resemblance writing output... [ 66%] source/rdkit.ML.Cluster.Standardize writing output... [ 66%] source/rdkit.ML.Composite writing output... [ 66%] source/rdkit.ML.Composite.AdjustComposite writing output... [ 67%] source/rdkit.ML.Composite.BayesComposite writing output... [ 67%] source/rdkit.ML.Composite.Composite writing output... [ 67%] source/rdkit.ML.CompositeRun writing output... [ 68%] source/rdkit.ML.Data writing output... [ 68%] source/rdkit.ML.Data.DataUtils writing output... [ 68%] source/rdkit.ML.Data.FindQuantBounds writing output... [ 69%] source/rdkit.ML.Data.MLData writing output... [ 69%] source/rdkit.ML.Data.Quantize writing output... [ 69%] source/rdkit.ML.Data.SplitData writing output... [ 70%] source/rdkit.ML.Data.Stats writing output... [ 70%] source/rdkit.ML.Data.Transforms writing output... [ 70%] source/rdkit.ML.DecTree writing output... [ 71%] source/rdkit.ML.DecTree.BuildQuantTree writing output... [ 71%] source/rdkit.ML.DecTree.BuildSigTree writing output... [ 71%] source/rdkit.ML.DecTree.CrossValidate writing output... [ 72%] source/rdkit.ML.DecTree.DecTree writing output... [ 72%] source/rdkit.ML.DecTree.Forest writing output... [ 72%] source/rdkit.ML.DecTree.ID3 writing output... [ 73%] source/rdkit.ML.DecTree.PruneTree writing output... [ 73%] source/rdkit.ML.DecTree.QuantTree writing output... [ 73%] source/rdkit.ML.DecTree.SigTree writing output... [ 74%] source/rdkit.ML.DecTree.Tree writing output... [ 74%] source/rdkit.ML.DecTree.TreeUtils writing output... [ 74%] source/rdkit.ML.DecTree.TreeVis writing output... [ 75%] source/rdkit.ML.DecTree.randomtest writing output... [ 75%] source/rdkit.ML.Descriptors writing output... [ 75%] source/rdkit.ML.Descriptors.CompoundDescriptors writing output... [ 76%] source/rdkit.ML.Descriptors.Descriptors writing output... [ 76%] source/rdkit.ML.Descriptors.MoleculeDescriptors writing output... [ 76%] source/rdkit.ML.Descriptors.Parser writing output... [ 77%] source/rdkit.ML.EnrichPlot writing output... [ 77%] source/rdkit.ML.GrowComposite writing output... [ 77%] source/rdkit.ML.InfoTheory writing output... [ 78%] source/rdkit.ML.InfoTheory.BitClusterer writing output... [ 78%] source/rdkit.ML.InfoTheory.BitRank writing output... [ 78%] source/rdkit.ML.InfoTheory.entropy writing output... [ 79%] source/rdkit.ML.InfoTheory.rdInfoTheory writing output... [ 79%] source/rdkit.ML.KNN writing output... [ 79%] source/rdkit.ML.KNN.CrossValidate writing output... [ 80%] source/rdkit.ML.KNN.DistFunctions writing output... [ 80%] source/rdkit.ML.KNN.KNNClassificationModel writing output... [ 80%] source/rdkit.ML.KNN.KNNModel writing output... [ 80%] source/rdkit.ML.KNN.KNNRegressionModel writing output... [ 81%] source/rdkit.ML.MLUtils writing output... [ 81%] source/rdkit.ML.MLUtils.VoteImg writing output... [ 81%] source/rdkit.ML.MatOps writing output... [ 82%] source/rdkit.ML.ModelPackage writing output... [ 82%] source/rdkit.ML.ModelPackage.PackageUtils writing output... [ 82%] source/rdkit.ML.ModelPackage.Packager writing output... [ 83%] source/rdkit.ML.NaiveBayes writing output... [ 83%] source/rdkit.ML.NaiveBayes.ClassificationModel writing output... [ 83%] source/rdkit.ML.NaiveBayes.CrossValidate writing output... [ 84%] source/rdkit.ML.Neural writing output... [ 84%] source/rdkit.ML.Neural.ActFuncs writing output... [ 84%] source/rdkit.ML.Neural.CrossValidate writing output... [ 85%] source/rdkit.ML.Neural.NetNode writing output... [ 85%] source/rdkit.ML.Neural.Network writing output... [ 85%] source/rdkit.ML.Neural.Trainers writing output... [ 86%] source/rdkit.ML.SLT writing output... [ 86%] source/rdkit.ML.SLT.Risk writing output... [ 86%] source/rdkit.ML.Scoring writing output... [ 87%] source/rdkit.ML.Scoring.Scoring writing output... [ 87%] source/rdkit.ML.ScreenComposite writing output... [ 87%] source/rdkit.ML.files writing output... [ 88%] source/rdkit.Numerics writing output... [ 88%] source/rdkit.Numerics.rdAlignment writing output... [ 88%] source/rdkit.RDConfig writing output... [ 89%] source/rdkit.RDLogger writing output... [ 89%] source/rdkit.RDPaths writing output... [ 89%] source/rdkit.RDRandom writing output... [ 90%] source/rdkit.SimDivFilters writing output... [ 90%] source/rdkit.SimDivFilters.SimilarityPickers writing output... [ 90%] source/rdkit.SimDivFilters.rdSimDivPickers writing output... [ 91%] source/rdkit.TestRunner writing output... [ 91%] source/rdkit.VLib writing output... [ 91%] source/rdkit.VLib.Filter writing output... [ 92%] source/rdkit.VLib.Node writing output... [ 92%] source/rdkit.VLib.NodeLib writing output... [ 92%] source/rdkit.VLib.NodeLib.DbMolSupply writing output... [ 93%] source/rdkit.VLib.NodeLib.DbPickleSupplier writing output... [ 93%] source/rdkit.VLib.NodeLib.SDSupply writing output... [ 93%] source/rdkit.VLib.NodeLib.SmartsMolFilter writing output... [ 94%] source/rdkit.VLib.NodeLib.SmartsRemover writing output... [ 94%] source/rdkit.VLib.NodeLib.SmilesDupeFilter writing output... [ 94%] source/rdkit.VLib.NodeLib.SmilesOutput writing output... [ 95%] source/rdkit.VLib.NodeLib.SmilesSupply writing output... [ 95%] source/rdkit.VLib.NodeLib.demo writing output... [ 95%] source/rdkit.VLib.Output writing output... [ 96%] source/rdkit.VLib.Supply writing output... [ 96%] source/rdkit.VLib.Transform writing output... [ 96%] source/rdkit.rdBase writing output... [ 97%] source/rdkit.six writing output... [ 97%] source/rdkit.utils writing output... [ 97%] source/rdkit.utils.cactvs writing output... [ 98%] source/rdkit.utils.chemdraw writing output... [ 98%] source/rdkit.utils.chemdraw_qax writing output... [ 98%] source/rdkit.utils.chemutils writing output... [ 99%] source/rdkit.utils.comhack writing output... [ 99%] source/rdkit.utils.fileutils writing output... [ 99%] source/rdkit.utils.listutils writing output... [100%] source/rdkit.utils.spiral generating indices... genindex writing additional pages... search copying images... [ 2%] images/indole1.png copying images... [ 5%] images/similarity_map_rf.png copying images... [ 7%] images/picture_1.png copying images... [ 10%] images/picture_0.png copying images... [ 12%] images/picture_3.png copying images... [ 15%] images/picture_2.png copying images... [ 17%] images/picture_4.png copying images... [ 20%] images/cdk2_mol1.png copying images... [ 22%] images/cdk2_mol2.png copying images... [ 25%] images/cdk2_molgrid.png copying images... [ 27%] images/cdk2_molgrid_aligned.png copying images... [ 30%] images/mfp2_bit872.svg copying images... [ 32%] images/rdk_bit1553.svg copying images... [ 35%] images/rdk_bit1553_2.svg copying images... [ 37%] images/similarity_map_fp1.png copying images... [ 40%] images/similarity_map_fp2.png copying images... [ 42%] images/similarity_map_fp3.png copying images... [ 45%] images/similarity_map_charges.png copying images... [ 47%] images/similarity_map_crippen.png copying images... [ 50%] images/picture_6.png copying images... [ 52%] images/picture_5.png copying images... [ 55%] images/picture_9.png copying images... [ 57%] images/picture_8.png copying images... [ 60%] images/picture_7.png copying images... [ 62%] images/picture_10.png copying images... [ 65%] images/picture_12.png copying images... [ 67%] images/picture_11.png copying images... [ 70%] images/picture_10.jpg copying images... [ 72%] ../Code/images/enhanced_stereo_and1_and2_base.png copying images... [ 75%] ../Code/images/enhanced_stereo_and1_and2_expand.png copying images... [ 77%] ../Code/images/enhanced_stereo_and1_cis_base.png copying images... [ 80%] ../Code/images/enhanced_stereo_and1_cis_expand.png copying images... [ 82%] ../Code/images/enhanced_stereo_and1_trans_base.png copying images... [ 85%] ../Code/images/enhanced_stereo_and1_trans_expand.png copying images... [ 87%] ../Code/images/enhanced_stereo_or1_or2_base.png copying images... [ 90%] ../Code/images/enhanced_stereo_or1_cis_base.png copying images... [ 92%] ../Code/images/enhanced_stereo_or1_trans_base.png copying images... [ 95%] ../Code/images/enhanced_stereo_abs_and_base.png copying images... [ 97%] ../Code/images/enhanced_stereo_abs_and_expand.png copying images... [100%] ../Code/images/enhanced_stereo_abs_or_base.png copying static files... WARNING: html_static_path entry '/<>/Docs/Book/_static' does not exist done copying extra files... done dumping search index in English (code: en) ... done dumping object inventory... done build succeeded, 307 warnings. The HTML pages are in _build/html. Build finished. The HTML pages are in _build/html. make[2]: Leaving directory '/<>/Docs/Book' (cd /<>/Docs/Book; RDBASE=/<> /usr/bin/make latexpdf) make[2]: Entering directory '/<>/Docs/Book' mkdir -p _build/html/cppapi cp -r /<>/Code/docs/* _build/html/cppapi sphinx-build -b latex -d _build/doctrees . _build/latex Running Sphinx v1.8.5 making output directory... loading pickled environment... done building [mo]: targets for 0 po files that are out of date building [latex]: all documents updating environment: 305 added, 0 changed, 0 removed reading sources... [ 0%] BackwardsIncompatibleChanges reading sources... [ 0%] Cartridge reading sources... [ 0%] Cookbook reading sources... [ 1%] GettingStartedInPython reading sources... [ 1%] Install reading sources... [ 1%] Overview reading sources... [ 2%] RDKit_Book reading sources... [ 2%] api-docs reading sources... [ 2%] index reading sources... [ 3%] source/modules reading sources... [ 3%] source/rdkit reading sources... [ 3%] source/rdkit.Avalon reading sources... [ 4%] source/rdkit.Avalon.pyAvalonTools reading sources... [ 4%] source/rdkit.Chem reading sources... [ 4%] source/rdkit.Chem.AllChem reading sources... [ 5%] source/rdkit.Chem.AtomPairs reading sources... [ 5%] source/rdkit.Chem.AtomPairs.Pairs reading sources... [ 5%] source/rdkit.Chem.AtomPairs.Sheridan reading sources... [ 6%] source/rdkit.Chem.AtomPairs.Torsions reading sources... [ 6%] source/rdkit.Chem.AtomPairs.Utils reading sources... [ 6%] source/rdkit.Chem.BRICS reading sources... [ 7%] source/rdkit.Chem.BuildFragmentCatalog reading sources... [ 7%] source/rdkit.Chem.ChemUtils reading sources... [ 7%] source/rdkit.Chem.ChemUtils.AlignDepict reading sources... [ 8%] source/rdkit.Chem.ChemUtils.BulkTester reading sources... [ 8%] source/rdkit.Chem.ChemUtils.DescriptorUtilities reading sources... [ 8%] source/rdkit.Chem.ChemUtils.SDFToCSV reading sources... [ 9%] source/rdkit.Chem.ChemUtils.TemplateExpand reading sources... [ 9%] source/rdkit.Chem.ChemicalFeatures reading sources... [ 9%] source/rdkit.Chem.ChemicalForceFields reading sources... [ 10%] source/rdkit.Chem.Crippen reading sources... [ 10%] source/rdkit.Chem.DSViewer reading sources... [ 10%] source/rdkit.Chem.Descriptors reading sources... [ 11%] source/rdkit.Chem.Descriptors3D reading sources... [ 11%] source/rdkit.Chem.Draw reading sources... [ 11%] source/rdkit.Chem.Draw.IPythonConsole reading sources... [ 12%] source/rdkit.Chem.Draw.MolDrawing reading sources... [ 12%] source/rdkit.Chem.Draw.SimilarityMaps reading sources... [ 12%] source/rdkit.Chem.Draw.aggCanvas reading sources... [ 13%] source/rdkit.Chem.Draw.cairoCanvas reading sources... [ 13%] source/rdkit.Chem.Draw.canvasbase reading sources... [ 13%] source/rdkit.Chem.Draw.mplCanvas reading sources... [ 14%] source/rdkit.Chem.Draw.qtCanvas reading sources... [ 14%] source/rdkit.Chem.Draw.rdMolDraw2D reading sources... [ 14%] source/rdkit.Chem.EState reading sources... [ 15%] source/rdkit.Chem.EState.AtomTypes reading sources... [ 15%] source/rdkit.Chem.EState.EState reading sources... [ 15%] source/rdkit.Chem.EState.EState_VSA reading sources... [ 16%] source/rdkit.Chem.EState.Fingerprinter reading sources... [ 16%] source/rdkit.Chem.EnumerateHeterocycles reading sources... [ 16%] source/rdkit.Chem.EnumerateStereoisomers reading sources... [ 17%] source/rdkit.Chem.FastSDMolSupplier reading sources... [ 17%] source/rdkit.Chem.FeatFinderCLI reading sources... [ 17%] source/rdkit.Chem.FeatMaps reading sources... [ 18%] source/rdkit.Chem.FeatMaps.FeatMapParser reading sources... [ 18%] source/rdkit.Chem.FeatMaps.FeatMapPoint reading sources... [ 18%] source/rdkit.Chem.FeatMaps.FeatMapUtils reading sources... [ 19%] source/rdkit.Chem.FeatMaps.FeatMaps reading sources... [ 19%] source/rdkit.Chem.Features reading sources... [ 19%] source/rdkit.Chem.Features.FeatDirUtilsRD reading sources... [ 20%] source/rdkit.Chem.Features.ShowFeats reading sources... [ 20%] source/rdkit.Chem.FilterCatalog reading sources... [ 20%] source/rdkit.Chem.Fingerprints reading sources... [ 20%] source/rdkit.Chem.Fingerprints.ClusterMols reading sources... [ 21%] source/rdkit.Chem.Fingerprints.DbFpSupplier reading sources... [ 21%] source/rdkit.Chem.Fingerprints.FingerprintMols reading sources... [ 21%] source/rdkit.Chem.Fingerprints.MolSimilarity reading sources... [ 22%] source/rdkit.Chem.Fingerprints.SimilarityScreener reading sources... [ 22%] source/rdkit.Chem.Fraggle reading sources... [ 22%] source/rdkit.Chem.Fraggle.FraggleSim reading sources... [ 23%] source/rdkit.Chem.FragmentCatalog reading sources... [ 23%] source/rdkit.Chem.FragmentMatcher reading sources... [ 23%] source/rdkit.Chem.Fragments reading sources... [ 24%] source/rdkit.Chem.FunctionalGroups reading sources... [ 24%] source/rdkit.Chem.GraphDescriptors reading sources... [ 24%] source/rdkit.Chem.Graphs reading sources... [ 25%] source/rdkit.Chem.Lipinski reading sources... [ 25%] source/rdkit.Chem.MACCSkeys reading sources... [ 25%] source/rdkit.Chem.MCS reading sources... [ 26%] source/rdkit.Chem.MolCatalog reading sources... [ 26%] source/rdkit.Chem.MolDb reading sources... [ 26%] source/rdkit.Chem.MolDb.FingerprintUtils reading sources... [ 27%] source/rdkit.Chem.MolDb.Loader reading sources... [ 27%] source/rdkit.Chem.MolDb.Loader_orig reading sources... [ 27%] source/rdkit.Chem.MolDb.Loader_sa reading sources... [ 28%] source/rdkit.Chem.MolKey reading sources... [ 28%] source/rdkit.Chem.MolKey.InchiInfo reading sources... [ 28%] source/rdkit.Chem.MolKey.MolKey reading sources... [ 29%] source/rdkit.Chem.MolStandardize reading sources... [ 29%] source/rdkit.Chem.MolStandardize.rdMolStandardize reading sources... [ 29%] source/rdkit.Chem.MolSurf reading sources... [ 30%] source/rdkit.Chem.PandasTools reading sources... [ 30%] source/rdkit.Chem.PeriodicTable reading sources... [ 30%] source/rdkit.Chem.Pharm2D reading sources... [ 31%] source/rdkit.Chem.Pharm2D.Generate reading sources... [ 31%] source/rdkit.Chem.Pharm2D.Gobbi_Pharm2D reading sources... [ 31%] source/rdkit.Chem.Pharm2D.LazyGenerator reading sources... [ 32%] source/rdkit.Chem.Pharm2D.Matcher reading sources... [ 32%] source/rdkit.Chem.Pharm2D.SigFactory reading sources... [ 32%] source/rdkit.Chem.Pharm2D.Utils reading sources... [ 33%] source/rdkit.Chem.Pharm3D reading sources... [ 33%] source/rdkit.Chem.Pharm3D.EmbedLib reading sources... [ 33%] source/rdkit.Chem.Pharm3D.ExcludedVolume reading sources... [ 34%] source/rdkit.Chem.Pharm3D.Pharmacophore reading sources... [ 34%] source/rdkit.Chem.PropertyMol reading sources... [ 34%] source/rdkit.Chem.PyMol reading sources... [ 35%] source/rdkit.Chem.QED reading sources... [ 35%] source/rdkit.Chem.Randomize reading sources... [ 35%] source/rdkit.Chem.Recap reading sources... [ 36%] source/rdkit.Chem.ReducedGraphs reading sources... [ 36%] source/rdkit.Chem.SATIS reading sources... [ 36%] source/rdkit.Chem.SaltRemover reading sources... [ 37%] source/rdkit.Chem.Scaffolds reading sources... [ 37%] source/rdkit.Chem.Scaffolds.MurckoScaffold reading sources... [ 37%] source/rdkit.Chem.Scaffolds.ScaffoldTree reading sources... [ 38%] source/rdkit.Chem.ShowMols reading sources... [ 38%] source/rdkit.Chem.SimpleEnum reading sources... [ 38%] source/rdkit.Chem.SimpleEnum.Enumerator reading sources... [ 39%] source/rdkit.Chem.Subshape reading sources... [ 39%] source/rdkit.Chem.Subshape.BuilderUtils reading sources... [ 39%] source/rdkit.Chem.Subshape.SubshapeAligner reading sources... [ 40%] source/rdkit.Chem.Subshape.SubshapeBuilder reading sources... [ 40%] source/rdkit.Chem.Subshape.SubshapeObjects reading sources... [ 40%] source/rdkit.Chem.Subshape.testCombined reading sources... [ 40%] source/rdkit.Chem.Suppliers reading sources... [ 41%] source/rdkit.Chem.Suppliers.DbMolSupplier reading sources... [ 41%] source/rdkit.Chem.Suppliers.MolSupplier reading sources... [ 41%] source/rdkit.Chem.TemplateAlign reading sources... [ 42%] source/rdkit.Chem.TorsionFingerprints reading sources... [ 42%] source/rdkit.Chem.fmcs reading sources... [ 42%] source/rdkit.Chem.fmcs.fmcs reading sources... [ 43%] source/rdkit.Chem.inchi reading sources... [ 43%] source/rdkit.Chem.rdChemReactions reading sources... [ 43%] source/rdkit.Chem.rdChemicalFeatures reading sources... [ 44%] source/rdkit.Chem.rdCoordGen reading sources... [ 44%] source/rdkit.Chem.rdDepictor reading sources... [ 44%] source/rdkit.Chem.rdDistGeom reading sources... [ 45%] source/rdkit.Chem.rdFMCS reading sources... [ 45%] source/rdkit.Chem.rdFingerprintGenerator reading sources... [ 45%] source/rdkit.Chem.rdForceFieldHelpers reading sources... [ 46%] source/rdkit.Chem.rdFreeSASA reading sources... [ 46%] source/rdkit.Chem.rdMMPA reading sources... [ 46%] source/rdkit.Chem.rdMolAlign reading sources... [ 47%] source/rdkit.Chem.rdMolCatalog reading sources... [ 47%] source/rdkit.Chem.rdMolChemicalFeatures reading sources... [ 47%] source/rdkit.Chem.rdMolDescriptors reading sources... [ 48%] source/rdkit.Chem.rdMolHash reading sources... [ 48%] source/rdkit.Chem.rdMolInterchange reading sources... [ 48%] source/rdkit.Chem.rdMolTransforms reading sources... [ 49%] source/rdkit.Chem.rdPartialCharges reading sources... [ 49%] source/rdkit.Chem.rdRGroupDecomposition reading sources... [ 49%] source/rdkit.Chem.rdReducedGraphs reading sources... [ 50%] source/rdkit.Chem.rdSLNParse reading sources... [ 50%] source/rdkit.Chem.rdShapeHelpers reading sources... [ 50%] source/rdkit.Chem.rdStructChecker reading sources... [ 51%] source/rdkit.Chem.rdSubstructLibrary reading sources... [ 51%] source/rdkit.Chem.rdchem reading sources... [ 51%] source/rdkit.Chem.rdfiltercatalog reading sources... [ 52%] source/rdkit.Chem.rdfragcatalog reading sources... [ 52%] source/rdkit.Chem.rdinchi reading sources... [ 52%] source/rdkit.Chem.rdmolfiles reading sources... [ 53%] source/rdkit.Chem.rdmolops reading sources... [ 53%] source/rdkit.Chem.rdqueries reading sources... [ 53%] source/rdkit.Chem.rdtrajectory reading sources... [ 54%] source/rdkit.DataManip reading sources... [ 54%] source/rdkit.DataManip.Metric reading sources... [ 54%] source/rdkit.DataManip.Metric.rdMetricMatrixCalc reading sources... [ 55%] source/rdkit.DataStructs reading sources... [ 55%] source/rdkit.DataStructs.BitEnsemble reading sources... [ 55%] source/rdkit.DataStructs.BitEnsembleDb reading sources... [ 56%] source/rdkit.DataStructs.BitUtils reading sources... [ 56%] source/rdkit.DataStructs.HierarchyVis reading sources... [ 56%] source/rdkit.DataStructs.LazySignature reading sources... [ 57%] source/rdkit.DataStructs.TopNContainer reading sources... [ 57%] source/rdkit.DataStructs.VectCollection reading sources... [ 57%] source/rdkit.DataStructs.cDataStructs reading sources... [ 58%] source/rdkit.Dbase reading sources... [ 58%] source/rdkit.Dbase.DbConnection reading sources... [ 58%] source/rdkit.Dbase.DbInfo reading sources... [ 59%] source/rdkit.Dbase.DbModule reading sources... [ 59%] source/rdkit.Dbase.DbReport reading sources... [ 59%] source/rdkit.Dbase.DbResultSet reading sources... [ 60%] source/rdkit.Dbase.DbUtils reading sources... [ 60%] source/rdkit.Dbase.StorageUtils reading sources... [ 60%] source/rdkit.DistanceGeometry reading sources... [ 60%] source/rdkit.DistanceGeometry.DistGeom reading sources... [ 61%] source/rdkit.ForceField reading sources... [ 61%] source/rdkit.ForceField.rdForceField reading sources... [ 61%] source/rdkit.Geometry reading sources... [ 62%] source/rdkit.Geometry.rdGeometry reading sources... [ 62%] source/rdkit.ML reading sources... [ 62%] source/rdkit.ML.AnalyzeComposite reading sources... [ 63%] source/rdkit.ML.BuildComposite reading sources... [ 63%] source/rdkit.ML.Cluster reading sources... [ 63%] source/rdkit.ML.Cluster.Butina reading sources... [ 64%] source/rdkit.ML.Cluster.ClusterUtils reading sources... [ 64%] source/rdkit.ML.Cluster.ClusterVis reading sources... [ 64%] source/rdkit.ML.Cluster.Clustering reading sources... [ 65%] source/rdkit.ML.Cluster.Clusters reading sources... [ 65%] source/rdkit.ML.Cluster.Murtagh reading sources... [ 65%] source/rdkit.ML.Cluster.Resemblance reading sources... [ 66%] source/rdkit.ML.Cluster.Standardize reading sources... [ 66%] source/rdkit.ML.Composite reading sources... [ 66%] source/rdkit.ML.Composite.AdjustComposite reading sources... [ 67%] source/rdkit.ML.Composite.BayesComposite reading sources... [ 67%] source/rdkit.ML.Composite.Composite reading sources... [ 67%] source/rdkit.ML.CompositeRun reading sources... [ 68%] source/rdkit.ML.Data reading sources... [ 68%] source/rdkit.ML.Data.DataUtils reading sources... [ 68%] source/rdkit.ML.Data.FindQuantBounds reading sources... [ 69%] source/rdkit.ML.Data.MLData reading sources... [ 69%] source/rdkit.ML.Data.Quantize reading sources... [ 69%] source/rdkit.ML.Data.SplitData reading sources... [ 70%] source/rdkit.ML.Data.Stats reading sources... [ 70%] source/rdkit.ML.Data.Transforms reading sources... [ 70%] source/rdkit.ML.DecTree reading sources... [ 71%] source/rdkit.ML.DecTree.BuildQuantTree reading sources... [ 71%] source/rdkit.ML.DecTree.BuildSigTree reading sources... [ 71%] source/rdkit.ML.DecTree.CrossValidate reading sources... [ 72%] source/rdkit.ML.DecTree.DecTree reading sources... [ 72%] source/rdkit.ML.DecTree.Forest reading sources... [ 72%] source/rdkit.ML.DecTree.ID3 reading sources... [ 73%] source/rdkit.ML.DecTree.PruneTree reading sources... [ 73%] source/rdkit.ML.DecTree.QuantTree reading sources... [ 73%] source/rdkit.ML.DecTree.SigTree reading sources... [ 74%] source/rdkit.ML.DecTree.Tree reading sources... [ 74%] source/rdkit.ML.DecTree.TreeUtils reading sources... [ 74%] source/rdkit.ML.DecTree.TreeVis reading sources... [ 75%] source/rdkit.ML.DecTree.randomtest reading sources... [ 75%] source/rdkit.ML.Descriptors reading sources... [ 75%] source/rdkit.ML.Descriptors.CompoundDescriptors reading sources... [ 76%] source/rdkit.ML.Descriptors.Descriptors reading sources... [ 76%] source/rdkit.ML.Descriptors.MoleculeDescriptors reading sources... [ 76%] source/rdkit.ML.Descriptors.Parser reading sources... [ 77%] source/rdkit.ML.EnrichPlot reading sources... [ 77%] source/rdkit.ML.GrowComposite reading sources... [ 77%] source/rdkit.ML.InfoTheory reading sources... [ 78%] source/rdkit.ML.InfoTheory.BitClusterer reading sources... [ 78%] source/rdkit.ML.InfoTheory.BitRank reading sources... [ 78%] source/rdkit.ML.InfoTheory.entropy reading sources... [ 79%] source/rdkit.ML.InfoTheory.rdInfoTheory reading sources... [ 79%] source/rdkit.ML.KNN reading sources... [ 79%] source/rdkit.ML.KNN.CrossValidate reading sources... [ 80%] source/rdkit.ML.KNN.DistFunctions reading sources... [ 80%] source/rdkit.ML.KNN.KNNClassificationModel reading sources... [ 80%] source/rdkit.ML.KNN.KNNModel reading sources... [ 80%] source/rdkit.ML.KNN.KNNRegressionModel reading sources... [ 81%] source/rdkit.ML.MLUtils reading sources... [ 81%] source/rdkit.ML.MLUtils.VoteImg reading sources... [ 81%] source/rdkit.ML.MatOps reading sources... [ 82%] source/rdkit.ML.ModelPackage reading sources... [ 82%] source/rdkit.ML.ModelPackage.PackageUtils reading sources... [ 82%] source/rdkit.ML.ModelPackage.Packager reading sources... [ 83%] source/rdkit.ML.NaiveBayes reading sources... [ 83%] source/rdkit.ML.NaiveBayes.ClassificationModel reading sources... [ 83%] source/rdkit.ML.NaiveBayes.CrossValidate reading sources... [ 84%] source/rdkit.ML.Neural reading sources... [ 84%] source/rdkit.ML.Neural.ActFuncs reading sources... [ 84%] source/rdkit.ML.Neural.CrossValidate reading sources... [ 85%] source/rdkit.ML.Neural.NetNode reading sources... [ 85%] source/rdkit.ML.Neural.Network reading sources... [ 85%] source/rdkit.ML.Neural.Trainers reading sources... [ 86%] source/rdkit.ML.SLT reading sources... [ 86%] source/rdkit.ML.SLT.Risk reading sources... [ 86%] source/rdkit.ML.Scoring reading sources... [ 87%] source/rdkit.ML.Scoring.Scoring reading sources... [ 87%] source/rdkit.ML.ScreenComposite reading sources... [ 87%] source/rdkit.ML.files reading sources... [ 88%] source/rdkit.Numerics reading sources... [ 88%] source/rdkit.Numerics.rdAlignment reading sources... [ 88%] source/rdkit.RDConfig reading sources... [ 89%] source/rdkit.RDLogger reading sources... [ 89%] source/rdkit.RDPaths reading sources... [ 89%] source/rdkit.RDRandom reading sources... [ 90%] source/rdkit.SimDivFilters reading sources... [ 90%] source/rdkit.SimDivFilters.SimilarityPickers reading sources... [ 90%] source/rdkit.SimDivFilters.rdSimDivPickers reading sources... [ 91%] source/rdkit.TestRunner reading sources... [ 91%] source/rdkit.VLib reading sources... [ 91%] source/rdkit.VLib.Filter reading sources... [ 92%] source/rdkit.VLib.Node reading sources... [ 92%] source/rdkit.VLib.NodeLib reading sources... [ 92%] source/rdkit.VLib.NodeLib.DbMolSupply reading sources... [ 93%] source/rdkit.VLib.NodeLib.DbPickleSupplier reading sources... [ 93%] source/rdkit.VLib.NodeLib.SDSupply reading sources... [ 93%] source/rdkit.VLib.NodeLib.SmartsMolFilter reading sources... [ 94%] source/rdkit.VLib.NodeLib.SmartsRemover reading sources... [ 94%] source/rdkit.VLib.NodeLib.SmilesDupeFilter reading sources... [ 94%] source/rdkit.VLib.NodeLib.SmilesOutput reading sources... [ 95%] source/rdkit.VLib.NodeLib.SmilesSupply reading sources... [ 95%] source/rdkit.VLib.NodeLib.demo reading sources... [ 95%] source/rdkit.VLib.Output reading sources... [ 96%] source/rdkit.VLib.Supply reading sources... [ 96%] source/rdkit.VLib.Transform reading sources... [ 96%] source/rdkit.rdBase reading sources... [ 97%] source/rdkit.six reading sources... [ 97%] source/rdkit.utils reading sources... [ 97%] source/rdkit.utils.cactvs reading sources... [ 98%] source/rdkit.utils.chemdraw reading sources... [ 98%] source/rdkit.utils.chemdraw_qax reading sources... [ 98%] source/rdkit.utils.chemutils reading sources... [ 99%] source/rdkit.utils.comhack reading sources... [ 99%] source/rdkit.utils.fileutils reading sources... [ 99%] source/rdkit.utils.listutils reading sources... [100%] source/rdkit.utils.spiral /usr/lib/python3/dist-packages/recommonmark/parser.py:280: UserWarning: Unsupported inline type Hardbreak warn("Unsupported inline type " + inline.t) /<>/Docs/Book/GettingStartedInPython.rst:2725: WARNING: Block quote ends without a blank line; unexpected unindent. WARNING: autodoc: failed to import module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Avalon' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Avalon.pyAvalonTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AllChem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Pairs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Sheridan' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Torsions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.AtomPairs.Utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.BRICS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.BuildFragmentCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.AlignDepict' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.BulkTester' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.DescriptorUtilities' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.SDFToCSV' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemUtils.TemplateExpand' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ChemicalForceFields' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Crippen' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.DSViewer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Descriptors3D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.IPythonConsole' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.MolDrawing' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.SimilarityMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.aggCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.cairoCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.canvasbase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.mplCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.qtCanvas' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Draw.rdMolDraw2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.AtomTypes' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.EState' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.EState_VSA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EState.Fingerprinter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EnumerateHeterocycles' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.EnumerateStereoisomers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FastSDMolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatFinderCLI' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapParser' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapPoint' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMapUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FeatMaps.FeatMaps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features.FeatDirUtilsRD' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Features.ShowFeats' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FilterCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.ClusterMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.DbFpSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.FingerprintMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.MolSimilarity' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fingerprints.SimilarityScreener' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fraggle' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fraggle.FraggleSim' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FragmentCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FragmentMatcher' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Fragments' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.FunctionalGroups' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.GraphDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Graphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Lipinski' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MACCSkeys' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MCS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.FingerprintUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_orig' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolDb.Loader_sa' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey.InchiInfo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolKey.MolKey' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolStandardize.rdMolStandardize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.MolSurf' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PandasTools' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PeriodicTable' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Generate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Gobbi_Pharm2D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.LazyGenerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Matcher' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.SigFactory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm2D.Utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.EmbedLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.ExcludedVolume' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Pharm3D.Pharmacophore' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PropertyMol' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.PyMol' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.QED' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Randomize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Recap' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ReducedGraphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SATIS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SaltRemover' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds.MurckoScaffold' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Scaffolds.ScaffoldTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.ShowMols' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SimpleEnum' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.SimpleEnum.Enumerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.BuilderUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeAligner' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeBuilder' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.SubshapeObjects' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Subshape.testCombined' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers.DbMolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.Suppliers.MolSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.TemplateAlign' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.TorsionFingerprints' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.fmcs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.fmcs.fmcs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.inchi' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdChemReactions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdChemicalFeatures.rst:2: WARNING: Title underline too short. rdkit.Chem.rdChemicalFeatures module ================================= WARNING: autodoc: failed to import module 'Chem.rdChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdCoordGen' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDepictor' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdDistGeom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFMCS' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFingerprintGenerator' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdForceFieldHelpers.rst:2: WARNING: Title underline too short. rdkit.Chem.rdForceFieldHelpers module ================================= WARNING: autodoc: failed to import module 'Chem.rdForceFieldHelpers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdFreeSASA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMMPA' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolAlign' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolCatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolChemicalFeatures.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolChemicalFeatures module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolChemicalFeatures' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolDescriptors.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolDescriptors module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolHash' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdMolInterchange.rst:2: WARNING: Title underline too short. rdkit.Chem.rdMolInterchange module ================================= WARNING: autodoc: failed to import module 'Chem.rdMolInterchange' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdMolTransforms' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdPartialCharges.rst:2: WARNING: Title underline too short. rdkit.Chem.rdPartialCharges module ================================= WARNING: autodoc: failed to import module 'Chem.rdPartialCharges' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdRGroupDecomposition.rst:2: WARNING: Title underline too short. rdkit.Chem.rdRGroupDecomposition module ================================= WARNING: autodoc: failed to import module 'Chem.rdRGroupDecomposition' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdReducedGraphs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdSLNParse' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdShapeHelpers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdStructChecker' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.Chem.rdSubstructLibrary.rst:2: WARNING: Title underline too short. rdkit.Chem.rdSubstructLibrary module ================================= WARNING: autodoc: failed to import module 'Chem.rdSubstructLibrary' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdchem' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdfiltercatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdfragcatalog' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdinchi' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdmolfiles' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdmolops' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdqueries' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Chem.rdtrajectory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataManip' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataManip.Metric' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataManip.Metric.rdMetricMatrixCalc' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitEnsemble' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitEnsembleDb' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.BitUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.HierarchyVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.LazySignature' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.TopNContainer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.VectCollection' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DataStructs.cDataStructs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbConnection' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbInfo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbModule' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbReport' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbResultSet' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.DbUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Dbase.StorageUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DistanceGeometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'DistanceGeometry.DistGeom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ForceField.rst:5: WARNING: Block quote ends without a blank line; unexpected unindent. WARNING: autodoc: failed to import module 'ForceField' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ForceField.rdForceField' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Geometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Geometry.rdGeometry' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.AnalyzeComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.BuildComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Butina' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.ClusterUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.ClusterVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Clustering' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Clusters' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Murtagh' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Resemblance' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Cluster.Standardize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.AdjustComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.BayesComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Composite.Composite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.CompositeRun' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.DataUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.FindQuantBounds' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.MLData' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Quantize' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.SplitData' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Stats' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Data.Transforms' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.BuildQuantTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.BuildSigTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.DecTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.Forest' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.ID3' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.PruneTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.QuantTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.SigTree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.Tree' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.TreeUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.TreeVis' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.DecTree.randomtest' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.CompoundDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.Descriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.MoleculeDescriptors' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Descriptors.Parser' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.EnrichPlot' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.GrowComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.BitClusterer' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.BitRank' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.InfoTheory.entropy' from module 'rdkit'; the following exception was raised: No module named 'rdkit' /<>/Docs/Book/source/rdkit.ML.InfoTheory.rdInfoTheory.rst:2: WARNING: Title underline too short. rdkit.ML.InfoTheory.rdInfoTheory module ====================================== WARNING: autodoc: failed to import module 'ML.InfoTheory.rdInfoTheory' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.DistFunctions' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNClassificationModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.KNN.KNNRegressionModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MLUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MLUtils.VoteImg' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.MatOps' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage.PackageUtils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ModelPackage.Packager' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes.ClassificationModel' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.NaiveBayes.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.ActFuncs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.CrossValidate' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.NetNode' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.Network' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Neural.Trainers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.SLT' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.SLT.Risk' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Scoring' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.Scoring.Scoring' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.ScreenComposite' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'ML.files' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Numerics' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'Numerics.rdAlignment' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDConfig' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDLogger' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDPaths' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'RDRandom' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters.SimilarityPickers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'SimDivFilters.rdSimDivPickers' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'TestRunner' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Filter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Node' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.DbMolSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.DbPickleSupplier' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SDSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsMolFilter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmartsRemover' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesDupeFilter' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesOutput' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.SmilesSupply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.NodeLib.demo' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Output' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Supply' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'VLib.Transform' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'rdBase' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'six' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.cactvs' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.chemdraw' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.chemdraw_qax' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.chemutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.comhack' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.fileutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.listutils' from module 'rdkit'; the following exception was raised: No module named 'rdkit' WARNING: autodoc: failed to import module 'utils.spiral' from module 'rdkit'; the following exception was raised: No module named 'rdkit' looking for now-outdated files... none found pickling environment... done checking consistency... /<>/Docs/Book/source/modules.rst: WARNING: document isn't included in any toctree done processing RDKit.tex...index Overview Install GettingStartedInPython RDKit_Book Cookbook Cartridge BackwardsIncompatibleChanges api-docs source/rdkit source/rdkit.Avalon source/rdkit.Avalon.pyAvalonTools source/rdkit.Chem source/rdkit.Chem.AtomPairs source/rdkit.Chem.AtomPairs.Pairs source/rdkit.Chem.AtomPairs.Sheridan source/rdkit.Chem.AtomPairs.Torsions source/rdkit.Chem.AtomPairs.Utils source/rdkit.Chem.ChemUtils source/rdkit.Chem.ChemUtils.AlignDepict source/rdkit.Chem.ChemUtils.BulkTester source/rdkit.Chem.ChemUtils.DescriptorUtilities source/rdkit.Chem.ChemUtils.SDFToCSV source/rdkit.Chem.ChemUtils.TemplateExpand source/rdkit.Chem.Draw source/rdkit.Chem.Draw.IPythonConsole source/rdkit.Chem.Draw.MolDrawing source/rdkit.Chem.Draw.SimilarityMaps source/rdkit.Chem.Draw.rdMolDraw2D source/rdkit.Chem.Draw.aggCanvas source/rdkit.Chem.Draw.cairoCanvas source/rdkit.Chem.Draw.canvasbase source/rdkit.Chem.Draw.mplCanvas source/rdkit.Chem.Draw.qtCanvas source/rdkit.Chem.EState source/rdkit.Chem.EState.AtomTypes source/rdkit.Chem.EState.EState source/rdkit.Chem.EState.EState_VSA source/rdkit.Chem.EState.Fingerprinter source/rdkit.Chem.FeatMaps source/rdkit.Chem.FeatMaps.FeatMapParser source/rdkit.Chem.FeatMaps.FeatMapPoint source/rdkit.Chem.FeatMaps.FeatMapUtils source/rdkit.Chem.FeatMaps.FeatMaps source/rdkit.Chem.Features source/rdkit.Chem.Features.FeatDirUtilsRD source/rdkit.Chem.Features.ShowFeats source/rdkit.Chem.Fingerprints source/rdkit.Chem.Fingerprints.ClusterMols source/rdkit.Chem.Fingerprints.DbFpSupplier source/rdkit.Chem.Fingerprints.FingerprintMols source/rdkit.Chem.Fingerprints.MolSimilarity source/rdkit.Chem.Fingerprints.SimilarityScreener source/rdkit.Chem.Fraggle source/rdkit.Chem.Fraggle.FraggleSim source/rdkit.Chem.MolDb source/rdkit.Chem.MolDb.FingerprintUtils source/rdkit.Chem.MolDb.Loader source/rdkit.Chem.MolDb.Loader_orig source/rdkit.Chem.MolDb.Loader_sa source/rdkit.Chem.MolKey source/rdkit.Chem.MolKey.InchiInfo source/rdkit.Chem.MolKey.MolKey source/rdkit.Chem.Pharm2D source/rdkit.Chem.Pharm2D.Generate source/rdkit.Chem.Pharm2D.Gobbi_Pharm2D source/rdkit.Chem.Pharm2D.LazyGenerator source/rdkit.Chem.Pharm2D.Matcher source/rdkit.Chem.Pharm2D.SigFactory source/rdkit.Chem.Pharm2D.Utils source/rdkit.Chem.Pharm3D source/rdkit.Chem.Pharm3D.EmbedLib source/rdkit.Chem.Pharm3D.ExcludedVolume source/rdkit.Chem.Pharm3D.Pharmacophore source/rdkit.Chem.Scaffolds source/rdkit.Chem.Scaffolds.MurckoScaffold source/rdkit.Chem.Scaffolds.ScaffoldTree source/rdkit.Chem.SimpleEnum source/rdkit.Chem.SimpleEnum.Enumerator source/rdkit.Chem.Subshape source/rdkit.Chem.Subshape.BuilderUtils source/rdkit.Chem.Subshape.SubshapeAligner source/rdkit.Chem.Subshape.SubshapeBuilder source/rdkit.Chem.Subshape.SubshapeObjects source/rdkit.Chem.Subshape.testCombined source/rdkit.Chem.Suppliers source/rdkit.Chem.Suppliers.DbMolSupplier source/rdkit.Chem.Suppliers.MolSupplier source/rdkit.Chem.fmcs source/rdkit.Chem.fmcs.fmcs source/rdkit.Chem.AllChem source/rdkit.Chem.BRICS source/rdkit.Chem.BuildFragmentCatalog source/rdkit.Chem.ChemicalFeatures source/rdkit.Chem.ChemicalForceFields source/rdkit.Chem.Crippen source/rdkit.Chem.DSViewer source/rdkit.Chem.Descriptors source/rdkit.Chem.Descriptors3D source/rdkit.Chem.EnumerateHeterocycles source/rdkit.Chem.EnumerateStereoisomers source/rdkit.Chem.FastSDMolSupplier source/rdkit.Chem.FeatFinderCLI source/rdkit.Chem.FilterCatalog source/rdkit.Chem.FragmentCatalog source/rdkit.Chem.FragmentMatcher source/rdkit.Chem.Fragments source/rdkit.Chem.FunctionalGroups source/rdkit.Chem.GraphDescriptors source/rdkit.Chem.Graphs source/rdkit.Chem.Lipinski source/rdkit.Chem.MACCSkeys source/rdkit.Chem.MCS source/rdkit.Chem.MolCatalog source/rdkit.Chem.MolStandardize source/rdkit.Chem.MolStandardize.rdMolStandardize source/rdkit.Chem.MolSurf source/rdkit.Chem.PandasTools source/rdkit.Chem.PeriodicTable source/rdkit.Chem.PropertyMol source/rdkit.Chem.PyMol source/rdkit.Chem.QED source/rdkit.Chem.Randomize source/rdkit.Chem.Recap source/rdkit.Chem.ReducedGraphs source/rdkit.Chem.SATIS source/rdkit.Chem.SaltRemover source/rdkit.Chem.ShowMols source/rdkit.Chem.TemplateAlign source/rdkit.Chem.TorsionFingerprints source/rdkit.Chem.inchi source/rdkit.Chem.rdchem source/rdkit.Chem.rdDistGeom source/rdkit.Chem.rdqueries source/rdkit.Chem.rdFMCS source/rdkit.Chem.rdMolAlign source/rdkit.Chem.rdMolHash source/rdkit.Chem.rdReducedGraphs source/rdkit.Chem.rdtrajectory source/rdkit.Chem.rdMolTransforms source/rdkit.Chem.rdmolfiles source/rdkit.Chem.rdPartialCharges source/rdkit.Chem.rdMolCatalog source/rdkit.Chem.rdCoordGen source/rdkit.Chem.rdMolChemicalFeatures source/rdkit.Chem.rdMMPA source/rdkit.Chem.rdRGroupDecomposition source/rdkit.Chem.rdForceFieldHelpers source/rdkit.Chem.rdDepictor source/rdkit.Chem.rdChemicalFeatures source/rdkit.Chem.rdmolops source/rdkit.Chem.rdFreeSASA source/rdkit.Chem.rdMolInterchange source/rdkit.Chem.rdShapeHelpers source/rdkit.Chem.rdinchi source/rdkit.Chem.rdChemReactions source/rdkit.Chem.rdSubstructLibrary source/rdkit.Chem.rdfiltercatalog source/rdkit.Chem.rdfragcatalog source/rdkit.Chem.rdStructChecker source/rdkit.Chem.rdMolDescriptors source/rdkit.Chem.rdFingerprintGenerator source/rdkit.Chem.rdSLNParse source/rdkit.DataManip source/rdkit.DataManip.Metric source/rdkit.DataManip.Metric.rdMetricMatrixCalc source/rdkit.DataStructs source/rdkit.DataStructs.BitEnsemble source/rdkit.DataStructs.BitEnsembleDb source/rdkit.DataStructs.BitUtils source/rdkit.DataStructs.HierarchyVis source/rdkit.DataStructs.LazySignature source/rdkit.DataStructs.TopNContainer source/rdkit.DataStructs.VectCollection source/rdkit.DataStructs.cDataStructs source/rdkit.Dbase source/rdkit.Dbase.DbConnection source/rdkit.Dbase.DbInfo source/rdkit.Dbase.DbModule source/rdkit.Dbase.DbReport source/rdkit.Dbase.DbResultSet source/rdkit.Dbase.DbUtils source/rdkit.Dbase.StorageUtils source/rdkit.DistanceGeometry source/rdkit.DistanceGeometry.DistGeom source/rdkit.ForceField source/rdkit.ForceField.rdForceField source/rdkit.Geometry source/rdkit.Geometry.rdGeometry source/rdkit.ML source/rdkit.ML.Cluster source/rdkit.ML.Cluster.Butina source/rdkit.ML.Cluster.ClusterUtils source/rdkit.ML.Cluster.ClusterVis source/rdkit.ML.Cluster.Clusters source/rdkit.ML.Cluster.Murtagh source/rdkit.ML.Cluster.Resemblance source/rdkit.ML.Cluster.Standardize source/rdkit.ML.Cluster.Clustering source/rdkit.ML.Composite source/rdkit.ML.Composite.AdjustComposite source/rdkit.ML.Composite.BayesComposite source/rdkit.ML.Composite.Composite source/rdkit.ML.Data source/rdkit.ML.Data.DataUtils source/rdkit.ML.Data.FindQuantBounds source/rdkit.ML.Data.MLData source/rdkit.ML.Data.Quantize source/rdkit.ML.Data.SplitData source/rdkit.ML.Data.Stats source/rdkit.ML.Data.Transforms source/rdkit.ML.DecTree source/rdkit.ML.DecTree.BuildQuantTree source/rdkit.ML.DecTree.BuildSigTree source/rdkit.ML.DecTree.CrossValidate source/rdkit.ML.DecTree.DecTree source/rdkit.ML.DecTree.Forest source/rdkit.ML.DecTree.ID3 source/rdkit.ML.DecTree.PruneTree source/rdkit.ML.DecTree.QuantTree source/rdkit.ML.DecTree.SigTree source/rdkit.ML.DecTree.Tree source/rdkit.ML.DecTree.TreeUtils source/rdkit.ML.DecTree.TreeVis source/rdkit.ML.DecTree.randomtest source/rdkit.ML.Descriptors source/rdkit.ML.Descriptors.CompoundDescriptors source/rdkit.ML.Descriptors.Descriptors source/rdkit.ML.Descriptors.MoleculeDescriptors source/rdkit.ML.Descriptors.Parser source/rdkit.ML.InfoTheory source/rdkit.ML.InfoTheory.BitClusterer source/rdkit.ML.InfoTheory.BitRank source/rdkit.ML.InfoTheory.entropy source/rdkit.ML.InfoTheory.rdInfoTheory source/rdkit.ML.KNN source/rdkit.ML.KNN.CrossValidate source/rdkit.ML.KNN.DistFunctions source/rdkit.ML.KNN.KNNClassificationModel source/rdkit.ML.KNN.KNNModel source/rdkit.ML.KNN.KNNRegressionModel source/rdkit.ML.MLUtils source/rdkit.ML.MLUtils.VoteImg source/rdkit.ML.ModelPackage source/rdkit.ML.ModelPackage.PackageUtils source/rdkit.ML.ModelPackage.Packager source/rdkit.ML.NaiveBayes source/rdkit.ML.NaiveBayes.ClassificationModel source/rdkit.ML.NaiveBayes.CrossValidate source/rdkit.ML.Neural source/rdkit.ML.Neural.ActFuncs source/rdkit.ML.Neural.CrossValidate source/rdkit.ML.Neural.NetNode source/rdkit.ML.Neural.Network source/rdkit.ML.Neural.Trainers source/rdkit.ML.SLT source/rdkit.ML.SLT.Risk source/rdkit.ML.Scoring source/rdkit.ML.Scoring.Scoring source/rdkit.ML.AnalyzeComposite source/rdkit.ML.BuildComposite source/rdkit.ML.CompositeRun source/rdkit.ML.EnrichPlot source/rdkit.ML.GrowComposite source/rdkit.ML.MatOps source/rdkit.ML.ScreenComposite source/rdkit.ML.files source/rdkit.Numerics source/rdkit.Numerics.rdAlignment source/rdkit.SimDivFilters source/rdkit.SimDivFilters.SimilarityPickers source/rdkit.SimDivFilters.rdSimDivPickers source/rdkit.VLib source/rdkit.VLib.NodeLib source/rdkit.VLib.NodeLib.DbMolSupply source/rdkit.VLib.NodeLib.DbPickleSupplier source/rdkit.VLib.NodeLib.SDSupply source/rdkit.VLib.NodeLib.SmartsMolFilter source/rdkit.VLib.NodeLib.SmartsRemover source/rdkit.VLib.NodeLib.SmilesDupeFilter source/rdkit.VLib.NodeLib.SmilesOutput source/rdkit.VLib.NodeLib.SmilesSupply source/rdkit.VLib.NodeLib.demo source/rdkit.VLib.Filter source/rdkit.VLib.Node source/rdkit.VLib.Output source/rdkit.VLib.Supply source/rdkit.VLib.Transform source/rdkit.utils source/rdkit.utils.cactvs source/rdkit.utils.chemdraw source/rdkit.utils.chemdraw_qax source/rdkit.utils.chemutils source/rdkit.utils.comhack source/rdkit.utils.fileutils source/rdkit.utils.listutils source/rdkit.utils.spiral source/rdkit.rdBase source/rdkit.RDConfig source/rdkit.RDLogger source/rdkit.RDPaths source/rdkit.RDRandom source/rdkit.TestRunner source/rdkit.six resolving references... writing... done copying images... [ 2%] images/picture_1.png copying images... [ 5%] images/picture_0.png copying images... [ 7%] images/picture_3.png copying images... [ 10%] images/picture_2.png copying images... [ 12%] images/picture_4.png copying images... [ 15%] images/cdk2_mol1.png copying images... [ 17%] images/cdk2_mol2.png copying images... [ 20%] images/cdk2_molgrid.png copying images... [ 22%] images/cdk2_molgrid_aligned.png copying images... [ 25%] images/mfp2_bit872.svg copying images... [ 27%] images/rdk_bit1553.svg copying images... [ 30%] images/rdk_bit1553_2.svg copying images... [ 32%] images/similarity_map_fp1.png copying images... [ 35%] images/similarity_map_fp2.png copying images... [ 37%] images/similarity_map_fp3.png copying images... [ 40%] images/similarity_map_charges.png copying images... [ 42%] images/similarity_map_crippen.png copying images... [ 45%] images/picture_6.png copying images... [ 47%] images/picture_5.png copying images... [ 50%] images/picture_9.png copying images... [ 52%] images/picture_8.png copying images... [ 55%] images/picture_7.png copying images... [ 57%] images/picture_10.png copying images... [ 60%] images/picture_12.png copying images... [ 62%] images/picture_11.png copying images... [ 65%] images/picture_10.jpg copying images... [ 67%] ../Code/images/enhanced_stereo_and1_and2_base.png copying images... [ 70%] ../Code/images/enhanced_stereo_and1_and2_expand.png copying images... [ 72%] ../Code/images/enhanced_stereo_and1_cis_base.png copying images... [ 75%] ../Code/images/enhanced_stereo_and1_cis_expand.png copying images... [ 77%] ../Code/images/enhanced_stereo_and1_trans_base.png copying images... [ 80%] ../Code/images/enhanced_stereo_and1_trans_expand.png copying images... [ 82%] ../Code/images/enhanced_stereo_or1_or2_base.png copying images... [ 85%] ../Code/images/enhanced_stereo_or1_cis_base.png copying images... [ 87%] ../Code/images/enhanced_stereo_or1_trans_base.png copying images... [ 90%] ../Code/images/enhanced_stereo_abs_and_base.png copying images... [ 92%] ../Code/images/enhanced_stereo_abs_and_expand.png copying images... [ 95%] ../Code/images/enhanced_stereo_abs_or_base.png copying images... [ 97%] images/indole1.png copying images... [100%] images/similarity_map_rf.png copying TeX support files... done build succeeded, 306 warnings. The LaTeX files are in _build/latex. Run 'make' in that directory to run these through (pdf)latex (use `make latexpdf' here to do that automatically). Running LaTeX files through pdflatex... make -C _build/latex all-pdf make[3]: Entering directory '/<>/Docs/Book/_build/latex' latexmk -pdf -dvi- -ps- 'RDKit.tex' Latexmk: This is Latexmk, John Collins, 18 June 2019, version: 4.65. Rule 'pdflatex': The following rules & subrules became out-of-date: 'pdflatex' ------------ Run number 1 of rule 'pdflatex' ------------ ------------ Running 'pdflatex -recorder "RDKit.tex"' ------------ Latexmk: applying rule 'pdflatex'... This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./RDKit.tex LaTeX2e <2019-10-01> patch level 3 (./sphinxmanual.cls Document Class: sphinxmanual 2018/12/22 v1.8.3 Document class (Sphinx manual) (/usr/share/texlive/texmf-dist/tex/latex/base/report.cls Document Class: report 2019/10/25 v1.4k Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo))) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/cmap/cmap.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)<>) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty)) (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.sty (/usr/share/texlive/texmf-dist/tex/generic/babel/switch.def) (/usr/share/texlive/texmf-dist/tex/generic/babel-english/english.ldf (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.def (/usr/share/texlive/texmf-dist/tex/generic/babel/txtbabel.def)))) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/fncychap/fncychap.sty) (./sphinx.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))) (/usr/share/texlive/texmf-dist/tex/latex/fancyhdr/fancyhdr.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/titlesec/titlesec.sty) (/usr/share/texlive/texmf-dist/tex/latex/tabulary/tabulary.sty (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/varwidth/varwidth.sty) (./sphinxmulticell.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) (/usr/share/texlive/texmf-dist/tex/latex/framed/framed.sty) (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty Style option: `fancyvrb' v3.4 <2019/11/09> (tvz)) (./footnotehyper-sphinx.sty) (/usr/share/texlive/texmf-dist/tex/latex/float/float.sty) (/usr/share/texlive/texmf-dist/tex/latex/wrapfig/wrapfig.sty) (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip.sty (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip-2001-04-09.sty)) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/upquote/upquote.sty) (/usr/share/texlive/texmf-dist/tex/latex/capt-of/capt-of.sty) (/usr/share/texlive/texmf-dist/tex/latex/needspace/needspace.sty) (./sphinxhighlight.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/kvsetkeys.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/infwarerr.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/etexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifluatex.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty)))))) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifpdf.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifvtex.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifxetex.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/pdftexcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/kvdefinekeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/pdfescape.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hycolor.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/xcolor-patch.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hopatch.sty))) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/letltxmacro.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/bitset.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/bigintcalc.sty)) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/atbegshi.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/atveryend.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/uniquecounter.sty))) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hypcap.sty) Writing index file RDKit.idx (./RDKit.aux) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd)<><><><> (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [2] [1] [2] Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) Underfull \hbox (badness 10000) in paragraph at lines 108--109 []\T1/ptm/m/n/10 Cheminformatics nodes for KN-IME (dis-tributed from the KN-IME com-mu-nity site: [1] LaTeX Warning: Hyper reference `Overview:footnote1' on page 2 undefined on inpu t line 202. [2] [3] [4] Chapter 2. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [5] [6] [7] [8] [9] Underfull \hbox (badness 10000) in paragraph at lines 714--715 []\T1/ptm/m/n/10 You can en-able sup-port for the Avalon toolkit by adding the ar-gu-ment [10] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) [11] Underfull \hbox (badness 10000) in paragraph at lines 812--813 []\T1/ptm/m/n/10 Add \T1/pcr/m/n/10 #define BOOST_PYTHON_NO_PY_SIGNATURES \T1/p tm/m/n/10 at the top of \T1/pcr/m/n/10 Code/GraphMol/Wrap/ [12] [13] Underfull \hbox (badness 10000) in paragraph at lines 993--995 []\T1/ptm/m/n/10 Run cmake. Here's an ex-am-ple ba-sic com-mand line for 64bit win-dows that will down- Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/ptm/m/n/10 load the InChI and Avalon toolkit sources from the InChI Trust a nd Source-Forge repos- Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/ptm/m/n/10 i-to-ries, re-spec-tively, and build the Post-greSQL car-tridge for the in-stalled ver-sion of Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/ptm/m/n/10 Post-greSQL: \T1/pcr/m/n/10 cmake -DRDK_BUILD_PYTHON_WRAPPERS=ON -DBOOST_ROOT=C:/ Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/pcr/m/n/10 boost -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_BUILD_AVALON_SUPPORT=ON Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/pcr/m/n/10 -DRDK_BUILD_PGSQL=ON -DPostgreSQL_ROOT="C:\Program Files\Postgre SQL\9.5" [14] Underfull \hbox (badness 10000) in paragraph at lines 1003--1004 []\T1/pcr/m/n/10 "C:\Program Files\PostgreSQL\9.5\bin\pg_ctl.exe" -N "postgresq l-9.5" Underfull \hbox (badness 10000) in paragraph at lines 1009--1010 []\T1/pcr/m/n/10 "C:\Program Files\PostgreSQL\9.5\bin\pg_ctl.exe" -N "postgresq l-9.5" [15] [16] Chapter 3. [17] Underfull \hbox (badness 10000) in paragraph at lines 1106--1107 []\T1/ptm/m/n/10 displays a mes-sage like: \T1/pcr/m/n/10 [12:18:01] Explicit v alence for atom # 1 O greater than [18] [19] LaTeX Warning: Hyper reference `GettingStartedInPython:chem-vs-allchem' on page 20 undefined on input line 1285. [20] [21] [22] [23] LaTeX Warning: Hyper reference `GettingStartedInPython:the-sssr-problem' on pag e 24 undefined on input line 1500. [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1633--1635 []\T1/ptm/m/n/10 Another op-tion for Com-pute2DCoords al-lows you to gen-er-ate 2D de-pic-tions for molecules that Underfull \hbox (badness 7649) in paragraph at lines 1633--1635 \T1/ptm/m/n/10 closely mimic 3D con-for-ma-tions. This is avail-able us-ing the func-tion \T1/pcr/m/n/10 rdkit.Chem.AllChem. Underfull \hbox (badness 10000) in paragraph at lines 1653--1658 []\T1/ptm/m/n/10 More fine-grained con-trol can be ob-tained us-ing the core fu nc-tion \T1/pcr/m/n/10 rdkit.Chem.rdDepictor. [26 <./picture_1.png (PNG copy)> <./picture_0.png (PNG copy)> <./picture_3.png (PNG copy)> <./picture_2.png> <./picture_4.png>] [27] [28] [29 <./cdk2_mol1.png > <./cdk2_mol2.png>] [30 <./cdk2_molgrid.png>] [31 <./cdk2_molgrid_aligned.png (PNG copy)>] [32] LaTeX Warning: Hyper reference `GettingStartedInPython:chemical-reactions' on p age 33 undefined on input line 2047. LaTeX Warning: Hyper reference `GettingStartedInPython:chemical-reactions' on p age 33 undefined on input line 2092. [33] [34] [35] [36] [37] [38] LaTeX Warning: Hyper reference `GettingStartedInPython:feature-definitions-used -in-the-morgan-fingerprints' on page 39 undefined on input line 2514. [39] [40] [41] [42 <./mfp2_bit872.png> <./rdk_bit1553.png> <./rdk_bit1553_2.png >] [43] Overfull \vbox (9.6296pt too high) detected at line 2831 [44 <./similarity_map_fp1.png>] [45 <./similarity_map_fp2.png>] LaTeX Warning: Hyper reference `GettingStartedInPython:list-of-available-descri ptors' on page 46 undefined on input line 2863. [46 <./similarity_map_fp3.png>] [47] [48 <./similarity_map_charges.png>] LaTeX Warning: Hyper reference `RDKit_Book::doc' on page 49 undefined on input line 2926. [49 <./similarity_map_crippen.png>] [50] [51] [52] [53] [54] LaTeX Warning: Hyper reference `RDKit_Book::doc' on page 55 undefined on input line 3331. [55] [56] [57] [58] Underfull \hbox (badness 6792) in paragraph at lines 3574--3577 []\T1/ptm/m/n/10 Or we can use the bit rank-ing func-tion-al-ity from the \T1/p cr/m/n/10 rdkit.ML.InfoTheory.rdInfoTheory. [59] [60] [61 <./picture_6.png>] [62] Underfull \hbox (badness 10000) in paragraph at lines 3894--3898 []|\T1/ptm/m/n/10 Wildman and Crip-pen \T1/ptm/m/it/10 JCICS Underfull \hbox (badness 10000) in paragraph at lines 3904--3908 []|\T1/ptm/m/n/10 Wildman and Crip-pen \T1/ptm/m/it/10 JCICS Overfull \hbox (26.64615pt too wide) in paragraph at lines 3972--3973 []|\T1/ptm/m/n/10 Num{Aromatic,Saturated,Aliphatic}Rings| Overfull \hbox (91.89552pt too wide) in paragraph at lines 3977--3978 []|\T1/ptm/m/n/10 Num{Aromatic,Saturated,Aliphatic}{Hetero,Carbo}cycles| Underfull \hbox (badness 10000) in paragraph at lines 4006--4009 []|\T1/ptm/m/n/10 Number of bridge-head atoms Underfull \hbox (badness 10000) in paragraph at lines 4034--4037 \T1/ptm/m/n/10 tions [][]$http : / / www . chemcomp . com / Underfull \hbox (badness 10000) in paragraph at lines 4043--4047 \T1/ptm/m/n/10 tri-bu-tions [][]$http : / / www . chemcomp . Underfull \hbox (badness 10000) in paragraph at lines 4053--4057 \T1/ptm/m/n/10 tri-bu-tions [][]$http : / / www . chemcomp . Underfull \hbox (badness 10000) in paragraph at lines 4089--4092 []|\T1/ptm/m/n/10 implemented us-ing a set of Underfull \hbox (badness 10000) in paragraph at lines 4089--4092 \T1/ptm/m/n/10 SMARTS def-i-ni-tions in $(RD- Overfull \hbox (9.18636pt too wide) in paragraph at lines 4089--4092 \T1/ptm/m/n/10 BASE)/Data/FragmentDescriptors.csv| Underfull \hbox (badness 7273) in paragraph at lines 4098--4101 \T1/ptm/m/n/10 and Con-soni ^^PDe-scrip-tors from [63] Package longtable Warning: Column widths have changed (longtable) in table 1 on input line 4105. Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 De-scrip- Overfull \hbox (19.60335pt too wide) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 tor/Descriptor Overfull \hbox (3.88354pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Lan- Overfull \hbox (8.88354pt too wide) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 guage| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 best fit Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 PMI1, Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 PMI2, Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 NPR1, Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Ra- Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 dius of Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 In-er-tial Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 shape Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Ec-cen- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 As- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Sphe- Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 roc-ity Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Au-to- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 GET- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| [64] Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Fin-ger-print Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Lan- Overfull \hbox (2.77637pt too wide) in paragraph at lines 4328--4328 \T1/ptm/m/n/10 guage| Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Topo-log-i-cal Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Mor- Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 2D Phar-ma- [65] Overfull \hbox (0.97221pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Fea- Overfull \hbox (8.75237pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Donor| Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Ac- Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/pcr/m/n/10 [$([O,S;H1;v2;!$(*-*=[O,N,P,S])]),$([O,S;H0;v2]),$([O,S;-]),$( [N;v3;! Overfull \hbox (2.08232pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Aro- Overfull \hbox (5.422pt too wide) in paragraph at lines 4378--4378 \T1/ptm/m/n/10 matic| Overfull \hbox (5.9722pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Halo- Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Ba- Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/pcr/m/n/10 [#7;+,$([N;H2&+0][$([C,a]);!$([C,a](=O))]),$([N;H1&+0]([$([C,a ]);! Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 \T1/pcr/m/n/10 $([C,a](=O))])[$([C,a]);!$([C,a](=O))]),$([N;H0&+0]([C;!$(C(=O)) ])([C;! Overfull \hbox (9.86208pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Acidic| [66 <./picture_5.png (PNG copy)>] [67] [68] Chapter 4. [69 <./picture_9.png (PNG copy)>] [70 <./picture_8.png> <./picture_7.png (PNG c opy)>] [71 <./picture_10.png> <./picture_12.png>] [72 <./picture_11.png>] [73] [74] [75] [76] [77] [78] [79] [80] [81] LaTeX Warning: Hyper reference `RDKit_Book:ph4-figure' on page 82 undefined on input line 5266. [82 <./picture_10.jpg>] [83] [84] Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 _Chi-ral-i-ty-Pos-si- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 _Re-ac-tion-De- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 mo-lAtomMap- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 molFileIn-ver- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 mol-Rxn-Com-po- [85] [86] Underfull \hbox (badness 10000) in paragraph at lines 5841--5845 []\T1/ptm/m/n/10 By de-fault the \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles.SDMolSupp lier \T1/ptm/m/n/10 and \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles. Underfull \hbox (badness 6559) in paragraph at lines 5841--5845 \T1/pcr/m/n/10 ForwardSDMolSupplier \T1/ptm/m/n/10 classes (\T1/pcr/m/n/10 RDKi t::SDMolSupplier \T1/ptm/m/n/10 and \T1/pcr/m/n/10 RDKit::ForwardMolSupplier [87] Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 []\T1/ptm/m/n/10 If you have atom prop-er-ties that you would like to have writ -ten to SDF files, you can Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 \T1/ptm/m/n/10 use the func-tions \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles.CreateAt omStringPropertyList()\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles.CreateAtomIntPropertyList()\T1/ptm/m/n/10 , \T1/pcr/m/n/10 rdkit.Chem. Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 \T1/pcr/m/n/10 rdmolfiles.CreateAtomDoublePropertyList()\T1/ptm/m/n/10 , or \T1 /pcr/m/n/10 rdkit.Chem.rdmolfiles. [88] Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/phv/m/n/10 Mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- [89] [90 <./enhanced_stereo_and1_and2_base.png> <./enhanced_stereo_and1_and2_ex pand.png> <./enhanced_stereo_and1_cis_base.png> <./enhanced_stereo_and1_cis_exp and.png> <./enhanced_stereo_and1_trans_base.png> <./enhanced_stereo_and1_trans_ expand.png> <./enhanced_stereo_or1_or2_base.png> <./enhanced_stereo_or1_cis_bas e.png> <./enhanced_stereo_or1_trans_base.png> <./enhanced_stereo_abs_and_base.p ng> <./enhanced_stereo_abs_and_expand.png> <./enhanced_stereo_abs_or_base.png>] Underfull \hbox (badness 7558) in paragraph at lines 6016--6018 []\T1/ptm/m/n/10 It is pos-si-ble to enu-mer-ate the el-e-ments of a \T1/pcr/m/ n/10 StereoGroup \T1/ptm/m/n/10 us-ing the func-tion \T1/pcr/m/n/10 rdkit.Chem. Underfull \hbox (badness 10000) in paragraph at lines 6030--6031 []\T1/ptm/m/n/10 Reactions also pre-serve \T1/pcr/m/n/10 StereoGroup\TS1/pcr/m/ n/10 ``\T1/pcr/m/n/10 s. Product atoms are included in the [91] [92] Chapter 5. [93] [94 <./indole1.png>] Overfull \vbox (2.48352pt too high) detected at line 6193 [95] [96] [97] Overfull \vbox (1.52577pt too high) detected at line 6378 [98] [99] [100] Overfull \vbox (2.13905pt too high) detected at line 6557 [101] [102] Underfull \hbox (badness 10000) in paragraph at lines 6590--6591 []\T1/ptm/m/n/10 IPython note-book: [][]$http : / / nbviewer . ipython . org / gist / greglandrum / 8351725$[][] [][]$https : / / gist . github . com / gregla ndrum / [103 <./similarity_map_rf.png>] [104] [105] Underfull \vbox (badness 10000) detected at line 6816 Overfull \vbox (2.68169pt too high) detected at line 6816 [106] [107] [108] Chapter 6. [109] [110] [111] Overfull \hbox (232.24419pt too wide) in paragraph at lines 7051--7051 []\T1/pcr/m/n/9 CC(C)C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N2c3cc ccc3[C[]@[][]@[]](O)(C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]3[]NC([]=[]O) c4ccccc4N4C([]=[]O)c5ccccc5NC34)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]N1C([ ]=[]O)C(CCCNC([]=[]O)OCc1ccccc1)NC([]=[]O)OC(C)(C)C| Overfull \hbox (86.44435pt too wide) in paragraph at lines 7052--7052 []\T1/pcr/m/n/9 CC(C)C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N2c3cc ccc3[C[]@[][]@[]](O)(C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]3[]NC([]=[]O) c4ccccc4N4C([]=[]O)c5ccccc5NC34)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]N1C([ ]=[]O)CCC([]=[]O)[O[]- Underfull \vbox (badness 1383) detected at line 7058 [112] Overfull \hbox (372.64403pt too wide) in paragraph at lines 7100--7100 []\T1/pcr/m/n/9 CNCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]= []C(N)N)C([]=[]O)N1C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C[C[]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]( Cc1ccc(O)cc1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)N[C[]@[][ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1c[nH]cn1)C([]=[]O)N1CCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc 1ccccc1)C([]=[]O| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7102--7102 []\T1/pcr/m/n/9 CNCCCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](NC([]=[]O)[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)NC([]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CCCCNC)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)cc 1)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CO)NC([]=[]O)[C[]@[][]\T1/pcr /b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)NC([]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/p cr/m/n/9 ](Cc1ccccc1)NC([]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7104--7104 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCNC(C)C)C([]=[]O)N[C[]@[] []\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7106--7106 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)C([]=[]O)N[C[ ]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7108--7108 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)C([]=[]O)N[C[ ]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7110--7110 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCNC1CCCCC1)C([]=[]O)N[C[] @[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](| Overfull \hbox (351.04405pt too wide) in paragraph at lines 7113--7113 [][]\T1/pcr/m/n/9 N)NS([]=[]O)([]=[]O)c1c(C)c(C)c2c(c1C)CCC(C)(C)O2)C([]=[]O)N[ C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ](COC(C)(C)C)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m /n/9 ](CCCCNC([]=[]O)c1ccccc1N)C([]=[]O)NCC([]=[]O)O)[C[]@[][]\T1/pcr/b/n/9 @H[ ]\T1/pcr/m/n/9 ](C)OC(C)(C)C| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7114--7114 []\T1/pcr/m/n/9 CC(C)C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O) [C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]([C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]c3ccccc23)NC([]=[ ]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C(C)C)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[] \T1/pcr/m/n/9 ](NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCN)NC([]=[]O )[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]CCCN2C([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCC(N)[]=[]O)NC| Overfull \hbox (426.64397pt too wide) in paragraph at lines 7115--7115 []|\T1/pcr/m/n/9 ([]=[]O)CNC([]=[]O)CN)CSSC[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m /n/9 ](C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccc(O)cc2)C([]=[ ]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CO)C([]=[]O)N[C[]\T1/pcr/b/n/9 @ H[]\T1/pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)NCC(N)[]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[] \T1/pcr/m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2 )NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccccc2)NC([]=[]O)CNC| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7119--7119 []\T1/pcr/m/n/9 CC1(C)SSC(C)(C)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]= []O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)C([]=[]O)N2CCC[C[]\ T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/p cr/m/n/9 ](Cc2ccccc2)C([]=[]O)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ] (Cc2ccc(O)cc2)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O)[C[ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)N| [113] Overfull \hbox (388.84401pt too wide) in paragraph at lines 7137--7137 []\T1/pcr/m/n/9 CNCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]= []C(N)N)C([]=[]O)N1C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C[C[]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]( Cc1ccc(O)cc1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)N[C[]@[][ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1c[nH]cn1)C([]=[]O)N1CCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc 1ccccc1)C([]=[]O)O)| Overfull \hbox (351.04405pt too wide) in paragraph at lines 7140--7140 [][]\T1/pcr/m/n/9 N)NS([]=[]O)([]=[]O)c1c(C)c(C)c2c(c1C)CCC(C)(C)O2)C([]=[]O)N[ C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ](COC(C)(C)C)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m /n/9 ](CCCCNC([]=[]O)c1ccccc1N)C([]=[]O)NCC([]=[]O)O)[C[]@[][]\T1/pcr/b/n/9 @H[ ]\T1/pcr/m/n/9 ](C)OC(C)(C)C| Overfull \hbox (388.84401pt too wide) in paragraph at lines 7141--7141 []\T1/pcr/m/n/9 CC(C)C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O) [C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]([C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]c3ccccc23)NC([]=[ ]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C(C)C)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[] \T1/pcr/m/n/9 ](NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCN)NC([]=[]O )[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]CCCN2C([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCC(N)[]=[]O)NC([]=[]O| Overfull \hbox (442.84395pt too wide) in paragraph at lines 7142--7142 []|\T1/pcr/m/n/9 )CNC([]=[]O)CN)CSSC[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]( C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccc(O)cc2)C([]=[]O)N[C[ ]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CO)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/ pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)NCC(N)[]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr /m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)NC([]= []O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccccc2)NC([]=[]O)CNC([]=[]O)[C| Overfull \hbox (388.84401pt too wide) in paragraph at lines 7144--7144 []\T1/pcr/m/n/9 NC(N)[]=[]NCCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](NC([]=[]O)[ C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](N)CC([]=[]O)O)C([]=[]O)N[C[]\T1/pcr/b /n/9 @H[]\T1/pcr/m/n/9 ][]1[]CCSSC[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C( []=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)C([]=[]O)N2CCC[C []\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T 1/pcr/m/n/9 ](Cc2ccccc2)C([]=[]O)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/ 9 ](Cc2ccc(O)cc| Overfull \hbox (388.84401pt too wide) in paragraph at lines 7146--7146 []\T1/pcr/m/n/9 CC1(C)SSC(C)(C)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]= []O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)C([]=[]O)N2CCC[C[]\ T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/p cr/m/n/9 ](Cc2ccccc2)C([]=[]O)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ] (Cc2ccc(O)cc2)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O)[C[ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)NC([]=[]| Overfull \vbox (13.68167pt too high) detected at line 7156 [114] Overfull \hbox (21.64442pt too wide) in paragraph at lines 7169--7169 []\T1/pcr/m/n/9 Cn1c(Nc2c(Cl)ccc(CNC([]=[]O)C(C)(C)C)c2Cl)nc2cc(C([]=[]O)Nc3ccc c(C(F)(F)F)n3)c(N3CCC(F)(F)C3)cc21| Overfull \hbox (21.64442pt too wide) in paragraph at lines 7205--7205 []\T1/pcr/m/n/9 Cn1c(Nc2c(Cl)ccc(CNC([]=[]O)C(C)(C)C)c2Cl)nc2cc(C([]=[]O)Nc3ccc c(C(F)(F)F)n3)c(N3CCC(F)(F)C3)cc21| [115] Overfull \hbox (21.64442pt too wide) in paragraph at lines 7228--7228 []\T1/pcr/m/n/9 Cn1c(Nc2c(Cl)ccc(CNC([]=[]O)C(C)(C)C)c2Cl)nc2cc(C([]=[]O)Nc3ccc c(C(F)(F)F)n3)c(N3CCC(F)(F)C3)cc21| [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] [126] Chapter 7. [127] [128] Chapter 8. [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] Chapter 9. [147] [148] Chapter 10. No file RDKit.ind. Package longtable Warning: Table widths have changed. Rerun LaTeX. [149] (./RDKit.aux) Package rerunfilecheck Warning: File `RDKit.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. LaTeX Warning: There were undefined references. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on RDKit.pdf (153 pages, 1630793 bytes). Transcript written on RDKit.log. Latexmk: Index file 'RDKit.idx' was written Latexmk: Missing input file: 'RDKit.ind' from line 'No file RDKit.ind.' Latexmk: References changed. Latexmk: References changed. Latexmk: Log file says output to 'RDKit.pdf' Rule 'makeindex RDKit.idx': File changes, etc: Changed files, or newly in use since previous run(s): 'RDKit.idx' ------------ Run number 1 of rule 'makeindex RDKit.idx' ------------ ------------ Running 'makeindex -s python.ist -o "RDKit.ind" "RDKit.idx"' ------------ === TeX engine is 'pdfTeX' Latexmk: applying rule 'makeindex RDKit.idx'... This is makeindex, version 2.15 [TeX Live 2019] (kpathsea + Thai support). Scanning style file ./python.ist.......done (7 attributes redefined, 0 ignored). Scanning input file RDKit.idx...done (0 entries accepted, 0 rejected). Nothing written in RDKit.ind. Transcript written in RDKit.ilg. Rule 'pdflatex': File changes, etc: Changed files, or newly in use since previous run(s): 'RDKit.aux' 'RDKit.ind' 'RDKit.out' ------------ Run number 2 of rule 'pdflatex' ------------ ------------ Running 'pdflatex -recorder "RDKit.tex"' ------------ Latexmk: applying rule 'pdflatex'... This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./RDKit.tex LaTeX2e <2019-10-01> patch level 3 (./sphinxmanual.cls Document Class: sphinxmanual 2018/12/22 v1.8.3 Document class (Sphinx manual) (/usr/share/texlive/texmf-dist/tex/latex/base/report.cls Document Class: report 2019/10/25 v1.4k Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo))) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/cmap/cmap.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)<>) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty)) (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.sty (/usr/share/texlive/texmf-dist/tex/generic/babel/switch.def) (/usr/share/texlive/texmf-dist/tex/generic/babel-english/english.ldf (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.def (/usr/share/texlive/texmf-dist/tex/generic/babel/txtbabel.def)))) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/fncychap/fncychap.sty) (./sphinx.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))) (/usr/share/texlive/texmf-dist/tex/latex/fancyhdr/fancyhdr.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/titlesec/titlesec.sty) (/usr/share/texlive/texmf-dist/tex/latex/tabulary/tabulary.sty (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/varwidth/varwidth.sty) (./sphinxmulticell.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) (/usr/share/texlive/texmf-dist/tex/latex/framed/framed.sty) (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty Style option: `fancyvrb' v3.4 <2019/11/09> (tvz)) (./footnotehyper-sphinx.sty) (/usr/share/texlive/texmf-dist/tex/latex/float/float.sty) (/usr/share/texlive/texmf-dist/tex/latex/wrapfig/wrapfig.sty) (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip.sty (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip-2001-04-09.sty)) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/upquote/upquote.sty) (/usr/share/texlive/texmf-dist/tex/latex/capt-of/capt-of.sty) (/usr/share/texlive/texmf-dist/tex/latex/needspace/needspace.sty) (./sphinxhighlight.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/kvsetkeys.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/infwarerr.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/etexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifluatex.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty)))))) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifpdf.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifvtex.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifxetex.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/pdftexcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/kvdefinekeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/pdfescape.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hycolor.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/xcolor-patch.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hopatch.sty))) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/letltxmacro.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/bitset.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/bigintcalc.sty)) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/atbegshi.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/atveryend.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/uniquecounter.sty))) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hypcap.sty) Writing index file RDKit.idx (./RDKit.aux LaTeX Warning: Label `Overview:an-overview-of-the-rdkit' multiply defined. LaTeX Warning: Label `Overview:what-is-it' multiply defined. LaTeX Warning: Label `Overview:open-source-toolkit-for-cheminformatics' multipl y defined. LaTeX Warning: Label `Overview:operational' multiply defined. LaTeX Warning: Label `Overview:history' multiply defined. LaTeX Warning: Label `Overview:integration-with-other-open-source-projects' mul tiply defined. LaTeX Warning: Label `Overview:usage-by-other-open-source-projects' multiply de fined. LaTeX Warning: Label `Overview:the-contrib-directory' multiply defined. LaTeX Warning: Label `Overview:footnotes' multiply defined. LaTeX Warning: Label `Overview:license' multiply defined. LaTeX Warning: Label `Install:installation' multiply defined. LaTeX Warning: Label `Install:cross-platform-under-anaconda-python-fastest-inst all' multiply defined. LaTeX Warning: Label `Install:introduction-to-anaconda' multiply defined. LaTeX Warning: Label `Install:how-to-get-conda' multiply defined. LaTeX Warning: Label `Install:how-to-install-rdkit-with-conda' multiply defined . LaTeX Warning: Label `Install:conda-forge-package' multiply defined. LaTeX Warning: Label `Install:how-to-build-from-source-with-conda' multiply def ined. LaTeX Warning: Label `Install:macos-10-12-sierra-python-3-environment' multiply defined. LaTeX Warning: Label `Install:linux-x86-64-python-3-environment' multiply defin ed. LaTeX Warning: Label `Install:installing-and-using-postgresql-and-the-rdkit-pos tgresql-cartridge-from-a-conda-environment' multiply defined. LaTeX Warning: Label `Install:linux-and-os-x' multiply defined. LaTeX Warning: Label `Install:installation-from-repositories' multiply defined. LaTeX Warning: Label `Install:ubuntu-12-04-and-later' multiply defined. LaTeX Warning: Label `Install:fedora-centos-and-rhel' multiply defined. LaTeX Warning: Label `Install:os-x' multiply defined. LaTeX Warning: Label `Install:building-from-source' multiply defined. LaTeX Warning: Label `Install:installing-prerequisites-from-source' multiply de fined. LaTeX Warning: Label `Install:installing-boost' multiply defined. LaTeX Warning: Label `Install:building-the-rdkit' multiply defined. LaTeX Warning: Label `Install:testing-the-build-optional-but-recommended' multi ply defined. LaTeX Warning: Label `Install:advanced' multiply defined. LaTeX Warning: Label `Install:specifying-an-alternate-boost-installation' multi ply defined. LaTeX Warning: Label `Install:specifying-an-alternate-python-installation' mult iply defined. LaTeX Warning: Label `Install:disabling-the-python-wrappers' multiply defined. LaTeX Warning: Label `Install:recommended-extras' multiply defined. LaTeX Warning: Label `Install:building-the-java-wrappers' multiply defined. LaTeX Warning: Label `Install:optional-packages' multiply defined. LaTeX Warning: Label `Install:frequently-encountered-problems' multiply defined . LaTeX Warning: Label `Install:windows' multiply defined. LaTeX Warning: Label `Install:prerequisites' multiply defined. LaTeX Warning: Label `Install:recommended-extras' multiply defined. LaTeX Warning: Label `Install:installation-of-rdkit-binaries' multiply defined. LaTeX Warning: Label `Install:installation-from-source' multiply defined. LaTeX Warning: Label `Install:extra-software-to-install' multiply defined. LaTeX Warning: Label `Install:setup-and-preparation' multiply defined. LaTeX Warning: Label `Install:building-from-the-command-line-recommended' multi ply defined. LaTeX Warning: Label `Install:testing-the-build-optional-but-recommended' multi ply defined. LaTeX Warning: Label `Install:license' multiply defined. LaTeX Warning: Label `Cookbook:rdkit-cookbook' multiply defined. LaTeX Warning: Label `Cookbook:what-is-this' multiply defined. LaTeX Warning: Label `Cookbook:miscellaneous-topics' multiply defined. LaTeX Warning: Label `Cookbook:using-a-different-aromaticity-model' multiply de fined. LaTeX Warning: Label `Cookbook:manipulating-molecules' multiply defined. LaTeX Warning: Label `Cookbook:cleaning-up-heterocycles' multiply defined. LaTeX Warning: Label `Cookbook:parallel-conformation-generation' multiply defin ed. LaTeX Warning: Label `Cookbook:neutralizing-charged-molecules' multiply defined . LaTeX Warning: Label `Cookbook:d-functionality-in-the-rdkit' multiply defined. LaTeX Warning: Label `Cookbook:using-scikit-learn-with-rdkit' multiply defined. LaTeX Warning: Label `Cookbook:using-custom-mcs-atom-types' multiply defined. LaTeX Warning: Label `Cookbook:clustering-molecules' multiply defined. LaTeX Warning: Label `Cookbook:rmsd-calculation-between-n-molecules' multiply d efined. LaTeX Warning: Label `Cookbook:introduction' multiply defined. LaTeX Warning: Label `Cookbook:details' multiply defined. LaTeX Warning: Label `Cookbook:license' multiply defined. LaTeX Warning: Label `Cartridge:the-rdkit-database-cartridge' multiply defined. LaTeX Warning: Label `Cartridge:what-is-this' multiply defined. LaTeX Warning: Label `Cartridge:tutorial' multiply defined. LaTeX Warning: Label `Cartridge:introduction' multiply defined. LaTeX Warning: Label `Cartridge:creating-databases' multiply defined. LaTeX Warning: Label `Cartridge:configuration' multiply defined. LaTeX Warning: Label `Cartridge:creating-a-database-from-a-file' multiply defin ed. LaTeX Warning: Label `Cartridge:loading-chembl' multiply defined. LaTeX Warning: Label `Cartridge:substructure-searches' multiply defined. LaTeX Warning: Label `Cartridge:smarts-based-queries' multiply defined. LaTeX Warning: Label `Cartridge:using-stereochemistry' multiply defined. LaTeX Warning: Label `Cartridge:tuning-queries' multiply defined. LaTeX Warning: Label `Cartridge:similarity-searches' multiply defined. LaTeX Warning: Label `Cartridge:adjusting-the-similarity-cutoff' multiply defin ed. LaTeX Warning: Label `Cartridge:using-the-mcs-code' multiply defined. LaTeX Warning: Label `Cartridge:reference-guide' multiply defined. LaTeX Warning: Label `Cartridge:new-types' multiply defined. LaTeX Warning: Label `Cartridge:parameters' multiply defined. LaTeX Warning: Label `Cartridge:operators' multiply defined. LaTeX Warning: Label `Cartridge:similarity-search' multiply defined. LaTeX Warning: Label `Cartridge:substructure-and-exact-structure-search' multip ly defined. LaTeX Warning: Label `Cartridge:molecule-comparison' multiply defined. LaTeX Warning: Label `Cartridge:functions' multiply defined. LaTeX Warning: Label `Cartridge:fingerprint-related' multiply defined. LaTeX Warning: Label `Cartridge:generating-fingerprints' multiply defined. LaTeX Warning: Label `Cartridge:working-with-fingerprints' multiply defined. LaTeX Warning: Label `Cartridge:fingerprint-i-o' multiply defined. LaTeX Warning: Label `Cartridge:molecule-related' multiply defined. LaTeX Warning: Label `Cartridge:molecule-i-o-and-validation' multiply defined. LaTeX Warning: Label `Cartridge:substructure-operations' multiply defined. LaTeX Warning: Label `Cartridge:descriptors' multiply defined. LaTeX Warning: Label `Cartridge:connectivity-descriptors' multiply defined. LaTeX Warning: Label `Cartridge:mcs' multiply defined. LaTeX Warning: Label `Cartridge:other' multiply defined. LaTeX Warning: Label `Cartridge:using-the-cartridge-from-python' multiply defin ed. LaTeX Warning: Label `Cartridge:license' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:backwards-incompatible-chang es' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:release-2018-03' multiply de fined. LaTeX Warning: Label `BackwardsIncompatibleChanges:moltosmiles-generates-isomer ic-smiles-by-default' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:moltomolblock-generates-a-2d -conformation-when-the-includestereo-flag-is-set' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:the-conformation-generation- code-now-uses-etkdg-by-default' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:release-2018-09' multiply de fined. LaTeX Warning: Label `BackwardsIncompatibleChanges:getatomsmiles-generates-isom eric-smiles-by-default' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:changes-to-ringmatchesringon ly-option-in-the-mcs-code' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:the-conformation-generation- code-now-uses-etkdg-by-default-when-called-from-python' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:license' multiply defined. ) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (./RDKit.out) (./RDKit.out) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd)<><><><> (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [2] (./RDKit.toc [1] [2] [3] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [4]) [5] [6] Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) Underfull \hbox (badness 10000) in paragraph at lines 108--109 []\T1/ptm/m/n/10 Cheminformatics nodes for KN-IME (dis-tributed from the KN-IME com-mu-nity site: [1] LaTeX Warning: Hyper reference `Overview:footnote1' on page 2 undefined on inpu t line 202. [2] [3] [4] Chapter 2. [5] [6] [7] [8] [9] Underfull \hbox (badness 10000) in paragraph at lines 714--715 []\T1/ptm/m/n/10 You can en-able sup-port for the Avalon toolkit by adding the ar-gu-ment [10] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) [11] Underfull \hbox (badness 10000) in paragraph at lines 812--813 []\T1/ptm/m/n/10 Add \T1/pcr/m/n/10 #define BOOST_PYTHON_NO_PY_SIGNATURES \T1/p tm/m/n/10 at the top of \T1/pcr/m/n/10 Code/GraphMol/Wrap/ [12] [13] Underfull \hbox (badness 10000) in paragraph at lines 993--995 []\T1/ptm/m/n/10 Run cmake. Here's an ex-am-ple ba-sic com-mand line for 64bit win-dows that will down- Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/ptm/m/n/10 load the InChI and Avalon toolkit sources from the InChI Trust a nd Source-Forge repos- Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/ptm/m/n/10 i-to-ries, re-spec-tively, and build the Post-greSQL car-tridge for the in-stalled ver-sion of Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/ptm/m/n/10 Post-greSQL: \T1/pcr/m/n/10 cmake -DRDK_BUILD_PYTHON_WRAPPERS=ON -DBOOST_ROOT=C:/ Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/pcr/m/n/10 boost -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_BUILD_AVALON_SUPPORT=ON Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/pcr/m/n/10 -DRDK_BUILD_PGSQL=ON -DPostgreSQL_ROOT="C:\Program Files\Postgre SQL\9.5" [14] Underfull \hbox (badness 10000) in paragraph at lines 1003--1004 []\T1/pcr/m/n/10 "C:\Program Files\PostgreSQL\9.5\bin\pg_ctl.exe" -N "postgresq l-9.5" Underfull \hbox (badness 10000) in paragraph at lines 1009--1010 []\T1/pcr/m/n/10 "C:\Program Files\PostgreSQL\9.5\bin\pg_ctl.exe" -N "postgresq l-9.5" [15] [16] Chapter 3. [17] Underfull \hbox (badness 10000) in paragraph at lines 1106--1107 []\T1/ptm/m/n/10 displays a mes-sage like: \T1/pcr/m/n/10 [12:18:01] Explicit v alence for atom # 1 O greater than [18] [19] [20] [21] [22] [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1633--1635 []\T1/ptm/m/n/10 Another op-tion for Com-pute2DCoords al-lows you to gen-er-ate 2D de-pic-tions for molecules that Underfull \hbox (badness 7649) in paragraph at lines 1633--1635 \T1/ptm/m/n/10 closely mimic 3D con-for-ma-tions. This is avail-able us-ing the func-tion \T1/pcr/m/n/10 rdkit.Chem.AllChem. Underfull \hbox (badness 10000) in paragraph at lines 1653--1658 []\T1/ptm/m/n/10 More fine-grained con-trol can be ob-tained us-ing the core fu nc-tion \T1/pcr/m/n/10 rdkit.Chem.rdDepictor. [26 <./picture_1.png (PNG copy)> <./picture_0.png (PNG copy)> <./picture_3.png (PNG copy)> <./picture_2.png> <./picture_4.png>] [27] [28] [29 <./cdk2_mol1.png > <./cdk2_mol2.png>] [30 <./cdk2_molgrid.png>] [31 <./cdk2_molgrid_aligned.png (PNG copy)>] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42 <./mfp2_bit8 72.png> <./rdk_bit1553.png> <./rdk_bit1553_2.png>] [43] Overfull \vbox (9.6296pt too high) detected at line 2831 [44 <./similarity_map_fp1.png>] [45 <./similarity_map_fp2.png>] [46 <./similari ty_map_fp3.png>] [47] [48 <./similarity_map_charges.png>] [49 <./similarity_map _crippen.png>] [50] [51] [52] [53] [54] [55] [56] [57] [58] Underfull \hbox (badness 6792) in paragraph at lines 3574--3577 []\T1/ptm/m/n/10 Or we can use the bit rank-ing func-tion-al-ity from the \T1/p cr/m/n/10 rdkit.ML.InfoTheory.rdInfoTheory. [59] [60] [61 <./picture_6.png>] [62] Underfull \hbox (badness 10000) in paragraph at lines 3894--3898 []|\T1/ptm/m/n/10 Wildman and Crip-pen \T1/ptm/m/it/10 JCICS Underfull \hbox (badness 10000) in paragraph at lines 3904--3908 []|\T1/ptm/m/n/10 Wildman and Crip-pen \T1/ptm/m/it/10 JCICS Overfull \hbox (26.64615pt too wide) in paragraph at lines 3972--3973 []|\T1/ptm/m/n/10 Num{Aromatic,Saturated,Aliphatic}Rings| Overfull \hbox (91.89552pt too wide) in paragraph at lines 3977--3978 []|\T1/ptm/m/n/10 Num{Aromatic,Saturated,Aliphatic}{Hetero,Carbo}cycles| Underfull \hbox (badness 10000) in paragraph at lines 4006--4009 []|\T1/ptm/m/n/10 Number of bridge-head atoms Underfull \hbox (badness 10000) in paragraph at lines 4034--4037 \T1/ptm/m/n/10 tions [][]$http : / / www . chemcomp . com / Underfull \hbox (badness 10000) in paragraph at lines 4043--4047 \T1/ptm/m/n/10 tri-bu-tions [][]$http : / / www . chemcomp . Underfull \hbox (badness 10000) in paragraph at lines 4053--4057 \T1/ptm/m/n/10 tri-bu-tions [][]$http : / / www . chemcomp . Underfull \hbox (badness 10000) in paragraph at lines 4089--4092 []|\T1/ptm/m/n/10 implemented us-ing a set of Underfull \hbox (badness 10000) in paragraph at lines 4089--4092 \T1/ptm/m/n/10 SMARTS def-i-ni-tions in $(RD- Overfull \hbox (9.18636pt too wide) in paragraph at lines 4089--4092 \T1/ptm/m/n/10 BASE)/Data/FragmentDescriptors.csv| Underfull \hbox (badness 7273) in paragraph at lines 4098--4101 \T1/ptm/m/n/10 and Con-soni ^^PDe-scrip-tors from [63] Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 De-scrip- Overfull \hbox (19.60335pt too wide) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 tor/Descriptor Overfull \hbox (3.88354pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Lan- Overfull \hbox (8.88354pt too wide) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 guage| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 best fit Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 PMI1, Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 PMI2, Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 NPR1, Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Ra- Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 dius of Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 In-er-tial Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 shape Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Ec-cen- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 As- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Sphe- Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 roc-ity Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Au-to- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 GET- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| [64] Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Fin-ger-print Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Lan- Overfull \hbox (2.77637pt too wide) in paragraph at lines 4328--4328 \T1/ptm/m/n/10 guage| Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Topo-log-i-cal Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Mor- Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 2D Phar-ma- [65] Overfull \hbox (0.97221pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Fea- Overfull \hbox (8.75237pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Donor| Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Ac- Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/pcr/m/n/10 [$([O,S;H1;v2;!$(*-*=[O,N,P,S])]),$([O,S;H0;v2]),$([O,S;-]),$( [N;v3;! Overfull \hbox (2.08232pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Aro- Overfull \hbox (5.422pt too wide) in paragraph at lines 4378--4378 \T1/ptm/m/n/10 matic| Overfull \hbox (5.9722pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Halo- Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Ba- Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/pcr/m/n/10 [#7;+,$([N;H2&+0][$([C,a]);!$([C,a](=O))]),$([N;H1&+0]([$([C,a ]);! Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 \T1/pcr/m/n/10 $([C,a](=O))])[$([C,a]);!$([C,a](=O))]),$([N;H0&+0]([C;!$(C(=O)) ])([C;! Overfull \hbox (9.86208pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Acidic| [66 <./picture_5.png (PNG copy)>] [67] [68] Chapter 4. [69 <./picture_9.png (PNG copy)>] [70 <./picture_8.png> <./picture_7.png (PNG c opy)>] [71 <./picture_10.png> <./picture_12.png>] [72 <./picture_11.png>] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82 <./picture_10.jpg>] [83] [84] Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 _Chi-ral-i-ty-Pos-si- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 _Re-ac-tion-De- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 mo-lAtomMap- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 molFileIn-ver- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 mol-Rxn-Com-po- [85] [86] Underfull \hbox (badness 10000) in paragraph at lines 5841--5845 []\T1/ptm/m/n/10 By de-fault the \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles.SDMolSupp lier \T1/ptm/m/n/10 and \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles. Underfull \hbox (badness 6559) in paragraph at lines 5841--5845 \T1/pcr/m/n/10 ForwardSDMolSupplier \T1/ptm/m/n/10 classes (\T1/pcr/m/n/10 RDKi t::SDMolSupplier \T1/ptm/m/n/10 and \T1/pcr/m/n/10 RDKit::ForwardMolSupplier [87] Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 []\T1/ptm/m/n/10 If you have atom prop-er-ties that you would like to have writ -ten to SDF files, you can Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 \T1/ptm/m/n/10 use the func-tions \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles.CreateAt omStringPropertyList()\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles.CreateAtomIntPropertyList()\T1/ptm/m/n/10 , \T1/pcr/m/n/10 rdkit.Chem. Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 \T1/pcr/m/n/10 rdmolfiles.CreateAtomDoublePropertyList()\T1/ptm/m/n/10 , or \T1 /pcr/m/n/10 rdkit.Chem.rdmolfiles. [88] Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/phv/m/n/10 Mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- [89] [90 <./enhanced_stereo_and1_and2_base.png> <./enhanced_stereo_and1_and2_ex pand.png> <./enhanced_stereo_and1_cis_base.png> <./enhanced_stereo_and1_cis_exp and.png> <./enhanced_stereo_and1_trans_base.png> <./enhanced_stereo_and1_trans_ expand.png> <./enhanced_stereo_or1_or2_base.png> <./enhanced_stereo_or1_cis_bas e.png> <./enhanced_stereo_or1_trans_base.png> <./enhanced_stereo_abs_and_base.p ng> <./enhanced_stereo_abs_and_expand.png> <./enhanced_stereo_abs_or_base.png>] Underfull \hbox (badness 7558) in paragraph at lines 6016--6018 []\T1/ptm/m/n/10 It is pos-si-ble to enu-mer-ate the el-e-ments of a \T1/pcr/m/ n/10 StereoGroup \T1/ptm/m/n/10 us-ing the func-tion \T1/pcr/m/n/10 rdkit.Chem. Underfull \hbox (badness 10000) in paragraph at lines 6030--6031 []\T1/ptm/m/n/10 Reactions also pre-serve \T1/pcr/m/n/10 StereoGroup\TS1/pcr/m/ n/10 ``\T1/pcr/m/n/10 s. Product atoms are included in the [91] [92] Chapter 5. [93] [94 <./indole1.png>] Overfull \vbox (2.48352pt too high) detected at line 6193 [95] [96] [97] Overfull \vbox (1.52577pt too high) detected at line 6378 [98] [99] [100] Overfull \vbox (2.13905pt too high) detected at line 6557 [101] [102] Underfull \hbox (badness 10000) in paragraph at lines 6590--6591 []\T1/ptm/m/n/10 IPython note-book: [][]$http : / / nbviewer . ipython . org / gist / greglandrum / 8351725$[][] [][]$https : / / gist . github . com / gregla ndrum / [103 <./similarity_map_rf.png>] [104] [105] Underfull \vbox (badness 10000) detected at line 6816 Overfull \vbox (2.68169pt too high) detected at line 6816 [106] [107] [108] Chapter 6. [109] [110] [111] Overfull \hbox (232.24419pt too wide) in paragraph at lines 7051--7051 []\T1/pcr/m/n/9 CC(C)C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N2c3cc ccc3[C[]@[][]@[]](O)(C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]3[]NC([]=[]O) c4ccccc4N4C([]=[]O)c5ccccc5NC34)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]N1C([ ]=[]O)C(CCCNC([]=[]O)OCc1ccccc1)NC([]=[]O)OC(C)(C)C| Overfull \hbox (86.44435pt too wide) in paragraph at lines 7052--7052 []\T1/pcr/m/n/9 CC(C)C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N2c3cc ccc3[C[]@[][]@[]](O)(C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]3[]NC([]=[]O) c4ccccc4N4C([]=[]O)c5ccccc5NC34)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]N1C([ ]=[]O)CCC([]=[]O)[O[]- Underfull \vbox (badness 1383) detected at line 7058 [112] Overfull \hbox (372.64403pt too wide) in paragraph at lines 7100--7100 []\T1/pcr/m/n/9 CNCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]= []C(N)N)C([]=[]O)N1C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C[C[]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]( Cc1ccc(O)cc1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)N[C[]@[][ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1c[nH]cn1)C([]=[]O)N1CCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc 1ccccc1)C([]=[]O| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7102--7102 []\T1/pcr/m/n/9 CNCCCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](NC([]=[]O)[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)NC([]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CCCCNC)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)cc 1)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CO)NC([]=[]O)[C[]@[][]\T1/pcr /b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)NC([]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/p cr/m/n/9 ](Cc1ccccc1)NC([]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7104--7104 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCNC(C)C)C([]=[]O)N[C[]@[] []\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7106--7106 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)C([]=[]O)N[C[ ]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7108--7108 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)C([]=[]O)N[C[ ]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7110--7110 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCNC1CCCCC1)C([]=[]O)N[C[] @[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](| Overfull \hbox (351.04405pt too wide) in paragraph at lines 7113--7113 [][]\T1/pcr/m/n/9 N)NS([]=[]O)([]=[]O)c1c(C)c(C)c2c(c1C)CCC(C)(C)O2)C([]=[]O)N[ C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ](COC(C)(C)C)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m /n/9 ](CCCCNC([]=[]O)c1ccccc1N)C([]=[]O)NCC([]=[]O)O)[C[]@[][]\T1/pcr/b/n/9 @H[ ]\T1/pcr/m/n/9 ](C)OC(C)(C)C| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7114--7114 []\T1/pcr/m/n/9 CC(C)C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O) [C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]([C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]c3ccccc23)NC([]=[ ]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C(C)C)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[] \T1/pcr/m/n/9 ](NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCN)NC([]=[]O )[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]CCCN2C([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCC(N)[]=[]O)NC| Overfull \hbox (426.64397pt too wide) in paragraph at lines 7115--7115 []|\T1/pcr/m/n/9 ([]=[]O)CNC([]=[]O)CN)CSSC[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m /n/9 ](C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccc(O)cc2)C([]=[ ]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CO)C([]=[]O)N[C[]\T1/pcr/b/n/9 @ H[]\T1/pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)NCC(N)[]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[] \T1/pcr/m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2 )NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccccc2)NC([]=[]O)CNC| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7119--7119 []\T1/pcr/m/n/9 CC1(C)SSC(C)(C)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]= []O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)C([]=[]O)N2CCC[C[]\ T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/p cr/m/n/9 ](Cc2ccccc2)C([]=[]O)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ] (Cc2ccc(O)cc2)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O)[C[ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)N| [113] Overfull \hbox (388.84401pt too wide) in paragraph at lines 7137--7137 []\T1/pcr/m/n/9 CNCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]= []C(N)N)C([]=[]O)N1C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C[C[]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]( Cc1ccc(O)cc1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)N[C[]@[][ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1c[nH]cn1)C([]=[]O)N1CCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc 1ccccc1)C([]=[]O)O)| Overfull \hbox (351.04405pt too wide) in paragraph at lines 7140--7140 [][]\T1/pcr/m/n/9 N)NS([]=[]O)([]=[]O)c1c(C)c(C)c2c(c1C)CCC(C)(C)O2)C([]=[]O)N[ C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ](COC(C)(C)C)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m /n/9 ](CCCCNC([]=[]O)c1ccccc1N)C([]=[]O)NCC([]=[]O)O)[C[]@[][]\T1/pcr/b/n/9 @H[ ]\T1/pcr/m/n/9 ](C)OC(C)(C)C| Overfull \hbox (388.84401pt too wide) in paragraph at lines 7141--7141 []\T1/pcr/m/n/9 CC(C)C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O) [C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]([C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]c3ccccc23)NC([]=[ ]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C(C)C)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[] \T1/pcr/m/n/9 ](NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCN)NC([]=[]O )[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]CCCN2C([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCC(N)[]=[]O)NC([]=[]O| Overfull \hbox (442.84395pt too wide) in paragraph at lines 7142--7142 []|\T1/pcr/m/n/9 )CNC([]=[]O)CN)CSSC[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]( C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccc(O)cc2)C([]=[]O)N[C[ ]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CO)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/ pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)NCC(N)[]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr /m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)NC([]= []O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccccc2)NC([]=[]O)CNC([]=[]O)[C| Overfull \hbox (388.84401pt too wide) in paragraph at lines 7144--7144 []\T1/pcr/m/n/9 NC(N)[]=[]NCCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](NC([]=[]O)[ C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](N)CC([]=[]O)O)C([]=[]O)N[C[]\T1/pcr/b /n/9 @H[]\T1/pcr/m/n/9 ][]1[]CCSSC[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C( []=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)C([]=[]O)N2CCC[C []\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T 1/pcr/m/n/9 ](Cc2ccccc2)C([]=[]O)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/ 9 ](Cc2ccc(O)cc| Overfull \hbox (388.84401pt too wide) in paragraph at lines 7146--7146 []\T1/pcr/m/n/9 CC1(C)SSC(C)(C)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]= []O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)C([]=[]O)N2CCC[C[]\ T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/p cr/m/n/9 ](Cc2ccccc2)C([]=[]O)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ] (Cc2ccc(O)cc2)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O)[C[ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)NC([]=[]| Overfull \vbox (13.68167pt too high) detected at line 7156 [114] Overfull \hbox (21.64442pt too wide) in paragraph at lines 7169--7169 []\T1/pcr/m/n/9 Cn1c(Nc2c(Cl)ccc(CNC([]=[]O)C(C)(C)C)c2Cl)nc2cc(C([]=[]O)Nc3ccc c(C(F)(F)F)n3)c(N3CCC(F)(F)C3)cc21| Overfull \hbox (21.64442pt too wide) in paragraph at lines 7205--7205 []\T1/pcr/m/n/9 Cn1c(Nc2c(Cl)ccc(CNC([]=[]O)C(C)(C)C)c2Cl)nc2cc(C([]=[]O)Nc3ccc c(C(F)(F)F)n3)c(N3CCC(F)(F)C3)cc21| [115] Overfull \hbox (21.64442pt too wide) in paragraph at lines 7228--7228 []\T1/pcr/m/n/9 Cn1c(Nc2c(Cl)ccc(CNC([]=[]O)C(C)(C)C)c2Cl)nc2cc(C([]=[]O)Nc3ccc c(C(F)(F)F)n3)c(N3CCC(F)(F)C3)cc21| [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] [126] Chapter 7. [127] [128] Chapter 8. [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] Chapter 9. [147] [148] Chapter 10. (./RDKit.ind) [149] (./RDKit.aux) LaTeX Warning: There were undefined references. LaTeX Warning: There were multiply-defined labels. ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on RDKit.pdf (157 pages, 1662861 bytes). Transcript written on RDKit.log. Latexmk: Index file 'RDKit.idx' was written Latexmk: Log file says output to 'RDKit.pdf' Latexmk: List of undefined refs and citations: Label `BackwardsIncompatibleChanges:backwards-incompatible-changes' multiply defined Label `BackwardsIncompatibleChanges:changes-to-ringmatchesringonly-option-in-the-mcs-code' multiply defined Label `BackwardsIncompatibleChanges:getatomsmiles-generates-isomeric-smiles-by-default' multiply defined Label `BackwardsIncompatibleChanges:license' multiply defined Label `BackwardsIncompatibleChanges:moltomolblock-generates-a-2d-conformation-when-the-includestereo-flag-is-set' multiply defined Label `BackwardsIncompatibleChanges:moltosmiles-generates-isomeric-smiles-by-default' multiply defined Label `BackwardsIncompatibleChanges:release-2018-03' multiply defined Label `BackwardsIncompatibleChanges:release-2018-09' multiply defined Label `BackwardsIncompatibleChanges:the-conformation-generation-code-now-uses-etkdg-by-default' multiply defined Label `BackwardsIncompatibleChanges:the-conformation-generation-code-now-uses-etkdg-by-default-when-called-from-python' multiply defined Label `Cartridge:adjusting-the-similarity-cutoff' multiply defined Label `Cartridge:configuration' multiply defined Label `Cartridge:connectivity-descriptors' multiply defined Label `Cartridge:creating-a-database-from-a-file' multiply defined Label `Cartridge:creating-databases' multiply defined Label `Cartridge:descriptors' multiply defined Label `Cartridge:fingerprint-i-o' multiply defined Label `Cartridge:fingerprint-related' multiply defined Label `Cartridge:functions' multiply defined Label `Cartridge:generating-fingerprints' multiply defined Label `Cartridge:introduction' multiply defined Label `Cartridge:license' multiply defined Label `Cartridge:loading-chembl' multiply defined Label `Cartridge:mcs' multiply defined Label `Cartridge:molecule-comparison' multiply defined Label `Cartridge:molecule-i-o-and-validation' multiply defined Label `Cartridge:molecule-related' multiply defined Label `Cartridge:new-types' multiply defined Label `Cartridge:operators' multiply defined Label `Cartridge:other' multiply defined Label `Cartridge:parameters' multiply defined Label `Cartridge:reference-guide' multiply defined Label `Cartridge:similarity-search' multiply defined Label `Cartridge:similarity-searches' multiply defined Label `Cartridge:smarts-based-queries' multiply defined Label `Cartridge:substructure-and-exact-structure-search' multiply defined Label `Cartridge:substructure-operations' multiply defined Label `Cartridge:substructure-searches' multiply defined Label `Cartridge:the-rdkit-database-cartridge' multiply defined Label `Cartridge:tuning-queries' multiply defined Label `Cartridge:tutorial' multiply defined Label `Cartridge:using-stereochemistry' multiply defined Label `Cartridge:using-the-cartridge-from-python' multiply defined Label `Cartridge:using-the-mcs-code' multiply defined Label `Cartridge:what-is-this' multiply defined Label `Cartridge:working-with-fingerprints' multiply defined Label `Cookbook:cleaning-up-heterocycles' multiply defined Label `Cookbook:clustering-molecules' multiply defined Label `Cookbook:d-functionality-in-the-rdkit' multiply defined Label `Cookbook:details' multiply defined Label `Cookbook:introduction' multiply defined Label `Cookbook:license' multiply defined Label `Cookbook:manipulating-molecules' multiply defined Label `Cookbook:miscellaneous-topics' multiply defined Label `Cookbook:neutralizing-charged-molecules' multiply defined Label `Cookbook:parallel-conformation-generation' multiply defined Label `Cookbook:rdkit-cookbook' multiply defined Label `Cookbook:rmsd-calculation-between-n-molecules' multiply defined Label `Cookbook:using-a-different-aromaticity-model' multiply defined Label `Cookbook:using-custom-mcs-atom-types' multiply defined Label `Cookbook:using-scikit-learn-with-rdkit' multiply defined Label `Cookbook:what-is-this' multiply defined Label `Install:advanced' multiply defined Label `Install:building-from-source' multiply defined Label `Install:building-from-the-command-line-recommended' multiply defined Label `Install:building-the-java-wrappers' multiply defined Label `Install:building-the-rdkit' multiply defined Label `Install:conda-forge-package' multiply defined Label `Install:cross-platform-under-anaconda-python-fastest-install' multiply defined Label `Install:disabling-the-python-wrappers' multiply defined Label `Install:extra-software-to-install' multiply defined Label `Install:fedora-centos-and-rhel' multiply defined Label `Install:frequently-encountered-problems' multiply defined Label `Install:how-to-build-from-source-with-conda' multiply defined Label `Install:how-to-get-conda' multiply defined Label `Install:how-to-install-rdkit-with-conda' multiply defined Label `Install:installation' multiply defined Label `Install:installation-from-repositories' multiply defined Label `Install:installation-from-source' multiply defined Label `Install:installation-of-rdkit-binaries' multiply defined Label `Install:installing-and-using-postgresql-and-the-rdkit-postgresql-cartridge-from-a-conda-environment' multiply defined Label `Install:installing-boost' multiply defined Label `Install:installing-prerequisites-from-source' multiply defined Label `Install:introduction-to-anaconda' multiply defined Label `Install:license' multiply defined Label `Install:linux-and-os-x' multiply defined Label `Install:linux-x86-64-python-3-environment' multiply defined Label `Install:macos-10-12-sierra-python-3-environment' multiply defined Label `Install:optional-packages' multiply defined Label `Install:os-x' multiply defined Label `Install:prerequisites' multiply defined Label `Install:recommended-extras' multiply defined Label `Install:setup-and-preparation' multiply defined Label `Install:specifying-an-alternate-boost-installation' multiply defined Label `Install:specifying-an-alternate-python-installation' multiply defined Label `Install:testing-the-build-optional-but-recommended' multiply defined Label `Install:ubuntu-12-04-and-later' multiply defined Label `Install:windows' multiply defined Label `Overview:an-overview-of-the-rdkit' multiply defined Label `Overview:footnotes' multiply defined Label `Overview:history' multiply defined Label `Overview:integration-with-other-open-source-projects' multiply defined Label `Overview:license' multiply defined Label `Overview:open-source-toolkit-for-cheminformatics' multiply defined Label `Overview:operational' multiply defined Label `Overview:the-contrib-directory' multiply defined Label `Overview:usage-by-other-open-source-projects' multiply defined Label `Overview:what-is-it' multiply defined Rule 'pdflatex': File changes, etc: Changed files, or newly in use since previous run(s): 'RDKit.toc' ------------ Run number 3 of rule 'pdflatex' ------------ ------------ Running 'pdflatex -recorder "RDKit.tex"' ------------ === TeX engine is 'pdfTeX' Latexmk: applying rule 'pdflatex'... This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./RDKit.tex LaTeX2e <2019-10-01> patch level 3 (./sphinxmanual.cls Document Class: sphinxmanual 2018/12/22 v1.8.3 Document class (Sphinx manual) (/usr/share/texlive/texmf-dist/tex/latex/base/report.cls Document Class: report 2019/10/25 v1.4k Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo))) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/cmap/cmap.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)<>) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty)) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty)) (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.sty (/usr/share/texlive/texmf-dist/tex/generic/babel/switch.def) (/usr/share/texlive/texmf-dist/tex/generic/babel-english/english.ldf (/usr/share/texlive/texmf-dist/tex/generic/babel/babel.def (/usr/share/texlive/texmf-dist/tex/generic/babel/txtbabel.def)))) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/fncychap/fncychap.sty) (./sphinx.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))) (/usr/share/texlive/texmf-dist/tex/latex/fancyhdr/fancyhdr.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/titlesec/titlesec.sty) (/usr/share/texlive/texmf-dist/tex/latex/tabulary/tabulary.sty (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/varwidth/varwidth.sty) (./sphinxmulticell.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) (/usr/share/texlive/texmf-dist/tex/latex/framed/framed.sty) (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty Style option: `fancyvrb' v3.4 <2019/11/09> (tvz)) (./footnotehyper-sphinx.sty) (/usr/share/texlive/texmf-dist/tex/latex/float/float.sty) (/usr/share/texlive/texmf-dist/tex/latex/wrapfig/wrapfig.sty) (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip.sty (/usr/share/texlive/texmf-dist/tex/latex/parskip/parskip-2001-04-09.sty)) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/upquote/upquote.sty) (/usr/share/texlive/texmf-dist/tex/latex/capt-of/capt-of.sty) (/usr/share/texlive/texmf-dist/tex/latex/needspace/needspace.sty) (./sphinxhighlight.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/kvsetkeys.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/infwarerr.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/etexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifluatex.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty)))))) (/usr/share/texlive/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifpdf.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifvtex.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifxetex.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/pdftexcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/kvdefinekeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/pdfescape.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hycolor.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/xcolor-patch.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hopatch.sty))) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/letltxmacro.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/bitset.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/bigintcalc.sty)) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/atbegshi.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/atveryend.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/uniquecounter.sty))) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hypcap.sty) Writing index file RDKit.idx (./RDKit.aux LaTeX Warning: Label `Overview:an-overview-of-the-rdkit' multiply defined. LaTeX Warning: Label `Overview:what-is-it' multiply defined. LaTeX Warning: Label `Overview:open-source-toolkit-for-cheminformatics' multipl y defined. LaTeX Warning: Label `Overview:operational' multiply defined. LaTeX Warning: Label `Overview:history' multiply defined. LaTeX Warning: Label `Overview:integration-with-other-open-source-projects' mul tiply defined. LaTeX Warning: Label `Overview:usage-by-other-open-source-projects' multiply de fined. LaTeX Warning: Label `Overview:the-contrib-directory' multiply defined. LaTeX Warning: Label `Overview:footnotes' multiply defined. LaTeX Warning: Label `Overview:license' multiply defined. LaTeX Warning: Label `Install:installation' multiply defined. LaTeX Warning: Label `Install:cross-platform-under-anaconda-python-fastest-inst all' multiply defined. LaTeX Warning: Label `Install:introduction-to-anaconda' multiply defined. LaTeX Warning: Label `Install:how-to-get-conda' multiply defined. LaTeX Warning: Label `Install:how-to-install-rdkit-with-conda' multiply defined . LaTeX Warning: Label `Install:conda-forge-package' multiply defined. LaTeX Warning: Label `Install:how-to-build-from-source-with-conda' multiply def ined. LaTeX Warning: Label `Install:macos-10-12-sierra-python-3-environment' multiply defined. LaTeX Warning: Label `Install:linux-x86-64-python-3-environment' multiply defin ed. LaTeX Warning: Label `Install:installing-and-using-postgresql-and-the-rdkit-pos tgresql-cartridge-from-a-conda-environment' multiply defined. LaTeX Warning: Label `Install:linux-and-os-x' multiply defined. LaTeX Warning: Label `Install:installation-from-repositories' multiply defined. LaTeX Warning: Label `Install:ubuntu-12-04-and-later' multiply defined. LaTeX Warning: Label `Install:fedora-centos-and-rhel' multiply defined. LaTeX Warning: Label `Install:os-x' multiply defined. LaTeX Warning: Label `Install:building-from-source' multiply defined. LaTeX Warning: Label `Install:installing-prerequisites-from-source' multiply de fined. LaTeX Warning: Label `Install:installing-boost' multiply defined. LaTeX Warning: Label `Install:building-the-rdkit' multiply defined. LaTeX Warning: Label `Install:testing-the-build-optional-but-recommended' multi ply defined. LaTeX Warning: Label `Install:advanced' multiply defined. LaTeX Warning: Label `Install:specifying-an-alternate-boost-installation' multi ply defined. LaTeX Warning: Label `Install:specifying-an-alternate-python-installation' mult iply defined. LaTeX Warning: Label `Install:disabling-the-python-wrappers' multiply defined. LaTeX Warning: Label `Install:recommended-extras' multiply defined. LaTeX Warning: Label `Install:building-the-java-wrappers' multiply defined. LaTeX Warning: Label `Install:optional-packages' multiply defined. LaTeX Warning: Label `Install:frequently-encountered-problems' multiply defined . LaTeX Warning: Label `Install:windows' multiply defined. LaTeX Warning: Label `Install:prerequisites' multiply defined. LaTeX Warning: Label `Install:recommended-extras' multiply defined. LaTeX Warning: Label `Install:installation-of-rdkit-binaries' multiply defined. LaTeX Warning: Label `Install:installation-from-source' multiply defined. LaTeX Warning: Label `Install:extra-software-to-install' multiply defined. LaTeX Warning: Label `Install:setup-and-preparation' multiply defined. LaTeX Warning: Label `Install:building-from-the-command-line-recommended' multi ply defined. LaTeX Warning: Label `Install:testing-the-build-optional-but-recommended' multi ply defined. LaTeX Warning: Label `Install:license' multiply defined. LaTeX Warning: Label `Cookbook:rdkit-cookbook' multiply defined. LaTeX Warning: Label `Cookbook:what-is-this' multiply defined. LaTeX Warning: Label `Cookbook:miscellaneous-topics' multiply defined. LaTeX Warning: Label `Cookbook:using-a-different-aromaticity-model' multiply de fined. LaTeX Warning: Label `Cookbook:manipulating-molecules' multiply defined. LaTeX Warning: Label `Cookbook:cleaning-up-heterocycles' multiply defined. LaTeX Warning: Label `Cookbook:parallel-conformation-generation' multiply defin ed. LaTeX Warning: Label `Cookbook:neutralizing-charged-molecules' multiply defined . LaTeX Warning: Label `Cookbook:d-functionality-in-the-rdkit' multiply defined. LaTeX Warning: Label `Cookbook:using-scikit-learn-with-rdkit' multiply defined. LaTeX Warning: Label `Cookbook:using-custom-mcs-atom-types' multiply defined. LaTeX Warning: Label `Cookbook:clustering-molecules' multiply defined. LaTeX Warning: Label `Cookbook:rmsd-calculation-between-n-molecules' multiply d efined. LaTeX Warning: Label `Cookbook:introduction' multiply defined. LaTeX Warning: Label `Cookbook:details' multiply defined. LaTeX Warning: Label `Cookbook:license' multiply defined. LaTeX Warning: Label `Cartridge:the-rdkit-database-cartridge' multiply defined. LaTeX Warning: Label `Cartridge:what-is-this' multiply defined. LaTeX Warning: Label `Cartridge:tutorial' multiply defined. LaTeX Warning: Label `Cartridge:introduction' multiply defined. LaTeX Warning: Label `Cartridge:creating-databases' multiply defined. LaTeX Warning: Label `Cartridge:configuration' multiply defined. LaTeX Warning: Label `Cartridge:creating-a-database-from-a-file' multiply defin ed. LaTeX Warning: Label `Cartridge:loading-chembl' multiply defined. LaTeX Warning: Label `Cartridge:substructure-searches' multiply defined. LaTeX Warning: Label `Cartridge:smarts-based-queries' multiply defined. LaTeX Warning: Label `Cartridge:using-stereochemistry' multiply defined. LaTeX Warning: Label `Cartridge:tuning-queries' multiply defined. LaTeX Warning: Label `Cartridge:similarity-searches' multiply defined. LaTeX Warning: Label `Cartridge:adjusting-the-similarity-cutoff' multiply defin ed. LaTeX Warning: Label `Cartridge:using-the-mcs-code' multiply defined. LaTeX Warning: Label `Cartridge:reference-guide' multiply defined. LaTeX Warning: Label `Cartridge:new-types' multiply defined. LaTeX Warning: Label `Cartridge:parameters' multiply defined. LaTeX Warning: Label `Cartridge:operators' multiply defined. LaTeX Warning: Label `Cartridge:similarity-search' multiply defined. LaTeX Warning: Label `Cartridge:substructure-and-exact-structure-search' multip ly defined. LaTeX Warning: Label `Cartridge:molecule-comparison' multiply defined. LaTeX Warning: Label `Cartridge:functions' multiply defined. LaTeX Warning: Label `Cartridge:fingerprint-related' multiply defined. LaTeX Warning: Label `Cartridge:generating-fingerprints' multiply defined. LaTeX Warning: Label `Cartridge:working-with-fingerprints' multiply defined. LaTeX Warning: Label `Cartridge:fingerprint-i-o' multiply defined. LaTeX Warning: Label `Cartridge:molecule-related' multiply defined. LaTeX Warning: Label `Cartridge:molecule-i-o-and-validation' multiply defined. LaTeX Warning: Label `Cartridge:substructure-operations' multiply defined. LaTeX Warning: Label `Cartridge:descriptors' multiply defined. LaTeX Warning: Label `Cartridge:connectivity-descriptors' multiply defined. LaTeX Warning: Label `Cartridge:mcs' multiply defined. LaTeX Warning: Label `Cartridge:other' multiply defined. LaTeX Warning: Label `Cartridge:using-the-cartridge-from-python' multiply defin ed. LaTeX Warning: Label `Cartridge:license' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:backwards-incompatible-chang es' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:release-2018-03' multiply de fined. LaTeX Warning: Label `BackwardsIncompatibleChanges:moltosmiles-generates-isomer ic-smiles-by-default' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:moltomolblock-generates-a-2d -conformation-when-the-includestereo-flag-is-set' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:the-conformation-generation- code-now-uses-etkdg-by-default' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:release-2018-09' multiply de fined. LaTeX Warning: Label `BackwardsIncompatibleChanges:getatomsmiles-generates-isom eric-smiles-by-default' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:changes-to-ringmatchesringon ly-option-in-the-mcs-code' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:the-conformation-generation- code-now-uses-etkdg-by-default-when-called-from-python' multiply defined. LaTeX Warning: Label `BackwardsIncompatibleChanges:license' multiply defined. ) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (./RDKit.out) (./RDKit.out) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd)<><><><> (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [2] (./RDKit.toc [1] [2] [3] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [4]) [5] [6] Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) Underfull \hbox (badness 10000) in paragraph at lines 108--109 []\T1/ptm/m/n/10 Cheminformatics nodes for KN-IME (dis-tributed from the KN-IME com-mu-nity site: [1] LaTeX Warning: Hyper reference `Overview:footnote1' on page 2 undefined on inpu t line 202. [2] [3] [4] Chapter 2. [5] [6] [7] [8] [9] Underfull \hbox (badness 10000) in paragraph at lines 714--715 []\T1/ptm/m/n/10 You can en-able sup-port for the Avalon toolkit by adding the ar-gu-ment [10] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) [11] Underfull \hbox (badness 10000) in paragraph at lines 812--813 []\T1/ptm/m/n/10 Add \T1/pcr/m/n/10 #define BOOST_PYTHON_NO_PY_SIGNATURES \T1/p tm/m/n/10 at the top of \T1/pcr/m/n/10 Code/GraphMol/Wrap/ [12] [13] Underfull \hbox (badness 10000) in paragraph at lines 993--995 []\T1/ptm/m/n/10 Run cmake. Here's an ex-am-ple ba-sic com-mand line for 64bit win-dows that will down- Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/ptm/m/n/10 load the InChI and Avalon toolkit sources from the InChI Trust a nd Source-Forge repos- Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/ptm/m/n/10 i-to-ries, re-spec-tively, and build the Post-greSQL car-tridge for the in-stalled ver-sion of Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/ptm/m/n/10 Post-greSQL: \T1/pcr/m/n/10 cmake -DRDK_BUILD_PYTHON_WRAPPERS=ON -DBOOST_ROOT=C:/ Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/pcr/m/n/10 boost -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_BUILD_AVALON_SUPPORT=ON Underfull \hbox (badness 10000) in paragraph at lines 993--995 \T1/pcr/m/n/10 -DRDK_BUILD_PGSQL=ON -DPostgreSQL_ROOT="C:\Program Files\Postgre SQL\9.5" [14] Underfull \hbox (badness 10000) in paragraph at lines 1003--1004 []\T1/pcr/m/n/10 "C:\Program Files\PostgreSQL\9.5\bin\pg_ctl.exe" -N "postgresq l-9.5" Underfull \hbox (badness 10000) in paragraph at lines 1009--1010 []\T1/pcr/m/n/10 "C:\Program Files\PostgreSQL\9.5\bin\pg_ctl.exe" -N "postgresq l-9.5" [15] [16] Chapter 3. [17] Underfull \hbox (badness 10000) in paragraph at lines 1106--1107 []\T1/ptm/m/n/10 displays a mes-sage like: \T1/pcr/m/n/10 [12:18:01] Explicit v alence for atom # 1 O greater than [18] [19] [20] [21] [22] [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1633--1635 []\T1/ptm/m/n/10 Another op-tion for Com-pute2DCoords al-lows you to gen-er-ate 2D de-pic-tions for molecules that Underfull \hbox (badness 7649) in paragraph at lines 1633--1635 \T1/ptm/m/n/10 closely mimic 3D con-for-ma-tions. This is avail-able us-ing the func-tion \T1/pcr/m/n/10 rdkit.Chem.AllChem. Underfull \hbox (badness 10000) in paragraph at lines 1653--1658 []\T1/ptm/m/n/10 More fine-grained con-trol can be ob-tained us-ing the core fu nc-tion \T1/pcr/m/n/10 rdkit.Chem.rdDepictor. [26 <./picture_1.png (PNG copy)> <./picture_0.png (PNG copy)> <./picture_3.png (PNG copy)> <./picture_2.png> <./picture_4.png>] [27] [28] [29 <./cdk2_mol1.png > <./cdk2_mol2.png>] [30 <./cdk2_molgrid.png>] [31 <./cdk2_molgrid_aligned.png (PNG copy)>] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42 <./mfp2_bit8 72.png> <./rdk_bit1553.png> <./rdk_bit1553_2.png>] [43] Overfull \vbox (9.6296pt too high) detected at line 2831 [44 <./similarity_map_fp1.png>] [45 <./similarity_map_fp2.png>] [46 <./similari ty_map_fp3.png>] [47] [48 <./similarity_map_charges.png>] [49 <./similarity_map _crippen.png>] [50] [51] [52] [53] [54] [55] [56] [57] [58] Underfull \hbox (badness 6792) in paragraph at lines 3574--3577 []\T1/ptm/m/n/10 Or we can use the bit rank-ing func-tion-al-ity from the \T1/p cr/m/n/10 rdkit.ML.InfoTheory.rdInfoTheory. [59] [60] [61 <./picture_6.png>] [62] Underfull \hbox (badness 10000) in paragraph at lines 3894--3898 []|\T1/ptm/m/n/10 Wildman and Crip-pen \T1/ptm/m/it/10 JCICS Underfull \hbox (badness 10000) in paragraph at lines 3904--3908 []|\T1/ptm/m/n/10 Wildman and Crip-pen \T1/ptm/m/it/10 JCICS Overfull \hbox (26.64615pt too wide) in paragraph at lines 3972--3973 []|\T1/ptm/m/n/10 Num{Aromatic,Saturated,Aliphatic}Rings| Overfull \hbox (91.89552pt too wide) in paragraph at lines 3977--3978 []|\T1/ptm/m/n/10 Num{Aromatic,Saturated,Aliphatic}{Hetero,Carbo}cycles| Underfull \hbox (badness 10000) in paragraph at lines 4006--4009 []|\T1/ptm/m/n/10 Number of bridge-head atoms Underfull \hbox (badness 10000) in paragraph at lines 4034--4037 \T1/ptm/m/n/10 tions [][]$http : / / www . chemcomp . com / Underfull \hbox (badness 10000) in paragraph at lines 4043--4047 \T1/ptm/m/n/10 tri-bu-tions [][]$http : / / www . chemcomp . Underfull \hbox (badness 10000) in paragraph at lines 4053--4057 \T1/ptm/m/n/10 tri-bu-tions [][]$http : / / www . chemcomp . Underfull \hbox (badness 10000) in paragraph at lines 4089--4092 []|\T1/ptm/m/n/10 implemented us-ing a set of Underfull \hbox (badness 10000) in paragraph at lines 4089--4092 \T1/ptm/m/n/10 SMARTS def-i-ni-tions in $(RD- Overfull \hbox (9.18636pt too wide) in paragraph at lines 4089--4092 \T1/ptm/m/n/10 BASE)/Data/FragmentDescriptors.csv| Underfull \hbox (badness 7273) in paragraph at lines 4098--4101 \T1/ptm/m/n/10 and Con-soni ^^PDe-scrip-tors from [63] Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 De-scrip- Overfull \hbox (19.60335pt too wide) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 tor/Descriptor Overfull \hbox (3.88354pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Lan- Overfull \hbox (8.88354pt too wide) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 guage| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 best fit Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 PMI1, Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 PMI2, Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 NPR1, Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Ra- Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 dius of Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 In-er-tial Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 shape Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Ec-cen- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 As- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Sphe- Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 \T1/ptm/m/n/10 roc-ity Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 Au-to- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| Underfull \hbox (badness 10000) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 GET- Overfull \hbox (2.95337pt too wide) in paragraph at lines 4248--4248 []\T1/ptm/m/n/10 C++| [64] Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Fin-ger-print Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Lan- Overfull \hbox (2.77637pt too wide) in paragraph at lines 4328--4328 \T1/ptm/m/n/10 guage| Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Topo-log-i-cal Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 Mor- Underfull \hbox (badness 10000) in paragraph at lines 4328--4328 []\T1/ptm/m/n/10 2D Phar-ma- [65] Overfull \hbox (0.97221pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Fea- Overfull \hbox (8.75237pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Donor| Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Ac- Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/pcr/m/n/10 [$([O,S;H1;v2;!$(*-*=[O,N,P,S])]),$([O,S;H0;v2]),$([O,S;-]),$( [N;v3;! Overfull \hbox (2.08232pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Aro- Overfull \hbox (5.422pt too wide) in paragraph at lines 4378--4378 \T1/ptm/m/n/10 matic| Overfull \hbox (5.9722pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Halo- Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Ba- Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 []\T1/pcr/m/n/10 [#7;+,$([N;H2&+0][$([C,a]);!$([C,a](=O))]),$([N;H1&+0]([$([C,a ]);! Underfull \hbox (badness 10000) in paragraph at lines 4378--4378 \T1/pcr/m/n/10 $([C,a](=O))])[$([C,a]);!$([C,a](=O))]),$([N;H0&+0]([C;!$(C(=O)) ])([C;! Overfull \hbox (9.86208pt too wide) in paragraph at lines 4378--4378 []\T1/ptm/m/n/10 Acidic| [66 <./picture_5.png (PNG copy)>] [67] [68] Chapter 4. [69 <./picture_9.png (PNG copy)>] [70 <./picture_8.png> <./picture_7.png (PNG c opy)>] [71 <./picture_10.png> <./picture_12.png>] [72 <./picture_11.png>] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82 <./picture_10.jpg>] [83] [84] Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 _Chi-ral-i-ty-Pos-si- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 _Re-ac-tion-De- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 mo-lAtomMap- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 molFileIn-ver- Underfull \hbox (badness 10000) in paragraph at lines 5702--5702 []\T1/ptm/m/n/10 mol-Rxn-Com-po- [85] [86] Underfull \hbox (badness 10000) in paragraph at lines 5841--5845 []\T1/ptm/m/n/10 By de-fault the \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles.SDMolSupp lier \T1/ptm/m/n/10 and \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles. Underfull \hbox (badness 6559) in paragraph at lines 5841--5845 \T1/pcr/m/n/10 ForwardSDMolSupplier \T1/ptm/m/n/10 classes (\T1/pcr/m/n/10 RDKi t::SDMolSupplier \T1/ptm/m/n/10 and \T1/pcr/m/n/10 RDKit::ForwardMolSupplier [87] Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 []\T1/ptm/m/n/10 If you have atom prop-er-ties that you would like to have writ -ten to SDF files, you can Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 \T1/ptm/m/n/10 use the func-tions \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles.CreateAt omStringPropertyList()\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 \T1/pcr/m/n/10 rdkit.Chem.rdmolfiles.CreateAtomIntPropertyList()\T1/ptm/m/n/10 , \T1/pcr/m/n/10 rdkit.Chem. Underfull \hbox (badness 10000) in paragraph at lines 5890--5893 \T1/pcr/m/n/10 rdmolfiles.CreateAtomDoublePropertyList()\T1/ptm/m/n/10 , or \T1 /pcr/m/n/10 rdkit.Chem.rdmolfiles. [88] Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/phv/m/n/10 Mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- Underfull \hbox (badness 10000) in paragraph at lines 6001--6001 []\T1/ptm/m/n/10 mix- [89] [90 <./enhanced_stereo_and1_and2_base.png> <./enhanced_stereo_and1_and2_ex pand.png> <./enhanced_stereo_and1_cis_base.png> <./enhanced_stereo_and1_cis_exp and.png> <./enhanced_stereo_and1_trans_base.png> <./enhanced_stereo_and1_trans_ expand.png> <./enhanced_stereo_or1_or2_base.png> <./enhanced_stereo_or1_cis_bas e.png> <./enhanced_stereo_or1_trans_base.png> <./enhanced_stereo_abs_and_base.p ng> <./enhanced_stereo_abs_and_expand.png> <./enhanced_stereo_abs_or_base.png>] Underfull \hbox (badness 7558) in paragraph at lines 6016--6018 []\T1/ptm/m/n/10 It is pos-si-ble to enu-mer-ate the el-e-ments of a \T1/pcr/m/ n/10 StereoGroup \T1/ptm/m/n/10 us-ing the func-tion \T1/pcr/m/n/10 rdkit.Chem. Underfull \hbox (badness 10000) in paragraph at lines 6030--6031 []\T1/ptm/m/n/10 Reactions also pre-serve \T1/pcr/m/n/10 StereoGroup\TS1/pcr/m/ n/10 ``\T1/pcr/m/n/10 s. Product atoms are included in the [91] [92] Chapter 5. [93] [94 <./indole1.png>] Overfull \vbox (2.48352pt too high) detected at line 6193 [95] [96] [97] Overfull \vbox (1.52577pt too high) detected at line 6378 [98] [99] [100] Overfull \vbox (2.13905pt too high) detected at line 6557 [101] [102] Underfull \hbox (badness 10000) in paragraph at lines 6590--6591 []\T1/ptm/m/n/10 IPython note-book: [][]$http : / / nbviewer . ipython . org / gist / greglandrum / 8351725$[][] [][]$https : / / gist . github . com / gregla ndrum / [103 <./similarity_map_rf.png>] [104] [105] Underfull \vbox (badness 10000) detected at line 6816 Overfull \vbox (2.68169pt too high) detected at line 6816 [106] [107] [108] Chapter 6. [109] [110] [111] Overfull \hbox (232.24419pt too wide) in paragraph at lines 7051--7051 []\T1/pcr/m/n/9 CC(C)C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N2c3cc ccc3[C[]@[][]@[]](O)(C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]3[]NC([]=[]O) c4ccccc4N4C([]=[]O)c5ccccc5NC34)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]N1C([ ]=[]O)C(CCCNC([]=[]O)OCc1ccccc1)NC([]=[]O)OC(C)(C)C| Overfull \hbox (86.44435pt too wide) in paragraph at lines 7052--7052 []\T1/pcr/m/n/9 CC(C)C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N2c3cc ccc3[C[]@[][]@[]](O)(C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]3[]NC([]=[]O) c4ccccc4N4C([]=[]O)c5ccccc5NC34)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]N1C([ ]=[]O)CCC([]=[]O)[O[]- Underfull \vbox (badness 1383) detected at line 7058 [112] Overfull \hbox (372.64403pt too wide) in paragraph at lines 7100--7100 []\T1/pcr/m/n/9 CNCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]= []C(N)N)C([]=[]O)N1C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C[C[]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]( Cc1ccc(O)cc1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)N[C[]@[][ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1c[nH]cn1)C([]=[]O)N1CCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc 1ccccc1)C([]=[]O| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7102--7102 []\T1/pcr/m/n/9 CNCCCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](NC([]=[]O)[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)NC([]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CCCCNC)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)cc 1)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CO)NC([]=[]O)[C[]@[][]\T1/pcr /b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)NC([]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/p cr/m/n/9 ](Cc1ccccc1)NC([]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7104--7104 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCNC(C)C)C([]=[]O)N[C[]@[] []\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7106--7106 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)C([]=[]O)N[C[ ]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7108--7108 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)C([]=[]O)N[C[ ]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7110--7110 []\T1/pcr/m/n/9 CC([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc2ccccc2c 1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]\T1/p cr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccccc1)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1 /pcr/m/n/9 ](CO)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1ccc(O)c c1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCNC1CCCCC1)C([]=[]O)N[C[] @[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](| Overfull \hbox (351.04405pt too wide) in paragraph at lines 7113--7113 [][]\T1/pcr/m/n/9 N)NS([]=[]O)([]=[]O)c1c(C)c(C)c2c(c1C)CCC(C)(C)O2)C([]=[]O)N[ C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ](COC(C)(C)C)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m /n/9 ](CCCCNC([]=[]O)c1ccccc1N)C([]=[]O)NCC([]=[]O)O)[C[]@[][]\T1/pcr/b/n/9 @H[ ]\T1/pcr/m/n/9 ](C)OC(C)(C)C| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7114--7114 []\T1/pcr/m/n/9 CC(C)C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O) [C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]([C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]c3ccccc23)NC([]=[ ]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C(C)C)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[] \T1/pcr/m/n/9 ](NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCN)NC([]=[]O )[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]CCCN2C([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCC(N)[]=[]O)NC| Overfull \hbox (426.64397pt too wide) in paragraph at lines 7115--7115 []|\T1/pcr/m/n/9 ([]=[]O)CNC([]=[]O)CN)CSSC[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m /n/9 ](C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccc(O)cc2)C([]=[ ]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CO)C([]=[]O)N[C[]\T1/pcr/b/n/9 @ H[]\T1/pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)NCC(N)[]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[] \T1/pcr/m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2 )NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccccc2)NC([]=[]O)CNC| Overfull \hbox (372.64403pt too wide) in paragraph at lines 7119--7119 []\T1/pcr/m/n/9 CC1(C)SSC(C)(C)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]= []O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)C([]=[]O)N2CCC[C[]\ T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/p cr/m/n/9 ](Cc2ccccc2)C([]=[]O)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ] (Cc2ccc(O)cc2)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O)[C[ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)N| [113] Overfull \hbox (388.84401pt too wide) in paragraph at lines 7137--7137 []\T1/pcr/m/n/9 CNCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]= []C(N)N)C([]=[]O)N1C[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C[C[]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]( Cc1ccc(O)cc1)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)N[C[]@[][ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc1c[nH]cn1)C([]=[]O)N1CCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc 1ccccc1)C([]=[]O)O)| Overfull \hbox (351.04405pt too wide) in paragraph at lines 7140--7140 [][]\T1/pcr/m/n/9 N)NS([]=[]O)([]=[]O)c1c(C)c(C)c2c(c1C)CCC(C)(C)O2)C([]=[]O)N[ C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)N[C[]@[][]\T1/pcr/b/n/ 9 @H[]\T1/pcr/m/n/9 ](COC(C)(C)C)C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m /n/9 ](CCCCNC([]=[]O)c1ccccc1N)C([]=[]O)NCC([]=[]O)O)[C[]@[][]\T1/pcr/b/n/9 @H[ ]\T1/pcr/m/n/9 ](C)OC(C)(C)C| Overfull \hbox (388.84401pt too wide) in paragraph at lines 7141--7141 []\T1/pcr/m/n/9 CC(C)C[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O) [C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]([C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]c3ccccc23)NC([]=[ ]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C(C)C)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[] \T1/pcr/m/n/9 ](NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCCN)NC([]=[]O )[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]CCCN2C([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCC(N)[]=[]O)NC([]=[]O| Overfull \hbox (442.84395pt too wide) in paragraph at lines 7142--7142 []|\T1/pcr/m/n/9 )CNC([]=[]O)CN)CSSC[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ]( C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccc(O)cc2)C([]=[]O)N[C[ ]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CO)C([]=[]O)N[C[]\T1/pcr/b/n/9 @H[]\T1/ pcr/m/n/9 ](C([]=[]O)NCC([]=[]O)NCC(N)[]=[]O)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr /m/n/9 ](C)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)NC([]= []O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2ccccc2)NC([]=[]O)CNC([]=[]O)[C| Overfull \hbox (388.84401pt too wide) in paragraph at lines 7144--7144 []\T1/pcr/m/n/9 NC(N)[]=[]NCCC[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](NC([]=[]O)[ C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](N)CC([]=[]O)O)C([]=[]O)N[C[]\T1/pcr/b /n/9 @H[]\T1/pcr/m/n/9 ][]1[]CCSSC[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C( []=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)C([]=[]O)N2CCC[C []\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T 1/pcr/m/n/9 ](Cc2ccccc2)C([]=[]O)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/ 9 ](Cc2ccc(O)cc| Overfull \hbox (388.84401pt too wide) in paragraph at lines 7146--7146 []\T1/pcr/m/n/9 CC1(C)SSC(C)(C)[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](C([]= []O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](Cc2c[nH]cn2)C([]=[]O)N2CCC[C[]\ T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]2[]C([]=[]O)N[C[]@[][]\T1/pcr/b/n/9 @H[]\T1/p cr/m/n/9 ](Cc2ccccc2)C([]=[]O)O)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ] (Cc2ccc(O)cc2)NC([]=[]O)[C[]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ][]1[]NC([]=[]O)[C[ ]\T1/pcr/b/n/9 @H[]\T1/pcr/m/n/9 ](CCCN[]=[]C(N)N)NC([]=[]| Overfull \vbox (13.68167pt too high) detected at line 7156 [114] Overfull \hbox (21.64442pt too wide) in paragraph at lines 7169--7169 []\T1/pcr/m/n/9 Cn1c(Nc2c(Cl)ccc(CNC([]=[]O)C(C)(C)C)c2Cl)nc2cc(C([]=[]O)Nc3ccc c(C(F)(F)F)n3)c(N3CCC(F)(F)C3)cc21| Overfull \hbox (21.64442pt too wide) in paragraph at lines 7205--7205 []\T1/pcr/m/n/9 Cn1c(Nc2c(Cl)ccc(CNC([]=[]O)C(C)(C)C)c2Cl)nc2cc(C([]=[]O)Nc3ccc c(C(F)(F)F)n3)c(N3CCC(F)(F)C3)cc21| [115] Overfull \hbox (21.64442pt too wide) in paragraph at lines 7228--7228 []\T1/pcr/m/n/9 Cn1c(Nc2c(Cl)ccc(CNC([]=[]O)C(C)(C)C)c2Cl)nc2cc(C([]=[]O)Nc3ccc c(C(F)(F)F)n3)c(N3CCC(F)(F)C3)cc21| [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] [126] Chapter 7. [127] [128] Chapter 8. [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] Chapter 9. [147] [148] Chapter 10. (./RDKit.ind) [149] (./RDKit.aux) LaTeX Warning: There were undefined references. LaTeX Warning: There were multiply-defined labels. ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc} Output written on RDKit.pdf (157 pages, 1662861 bytes). Transcript written on RDKit.log. Latexmk: Index file 'RDKit.idx' was written Latexmk: Log file says output to 'RDKit.pdf' Latexmk: List of undefined refs and citations: Label `BackwardsIncompatibleChanges:backwards-incompatible-changes' multiply defined Label `BackwardsIncompatibleChanges:changes-to-ringmatchesringonly-option-in-the-mcs-code' multiply defined Label `BackwardsIncompatibleChanges:getatomsmiles-generates-isomeric-smiles-by-default' multiply defined Label `BackwardsIncompatibleChanges:license' multiply defined Label `BackwardsIncompatibleChanges:moltomolblock-generates-a-2d-conformation-when-the-includestereo-flag-is-set' multiply defined Label `BackwardsIncompatibleChanges:moltosmiles-generates-isomeric-smiles-by-default' multiply defined Label `BackwardsIncompatibleChanges:release-2018-03' multiply defined Label `BackwardsIncompatibleChanges:release-2018-09' multiply defined Label `BackwardsIncompatibleChanges:the-conformation-generation-code-now-uses-etkdg-by-default' multiply defined Label `BackwardsIncompatibleChanges:the-conformation-generation-code-now-uses-etkdg-by-default-when-called-from-python' multiply defined Label `Cartridge:adjusting-the-similarity-cutoff' multiply defined Label `Cartridge:configuration' multiply defined Label `Cartridge:connectivity-descriptors' multiply defined Label `Cartridge:creating-a-database-from-a-file' multiply defined Label `Cartridge:creating-databases' multiply defined Label `Cartridge:descriptors' multiply defined Label `Cartridge:fingerprint-i-o' multiply defined Label `Cartridge:fingerprint-related' multiply defined Label `Cartridge:functions' multiply defined Label `Cartridge:generating-fingerprints' multiply defined Label `Cartridge:introduction' multiply defined Label `Cartridge:license' multiply defined Label `Cartridge:loading-chembl' multiply defined Label `Cartridge:mcs' multiply defined Label `Cartridge:molecule-comparison' multiply defined Label `Cartridge:molecule-i-o-and-validation' multiply defined Label `Cartridge:molecule-related' multiply defined Label `Cartridge:new-types' multiply defined Label `Cartridge:operators' multiply defined Label `Cartridge:other' multiply defined Label `Cartridge:parameters' multiply defined Label `Cartridge:reference-guide' multiply defined Label `Cartridge:similarity-search' multiply defined Label `Cartridge:similarity-searches' multiply defined Label `Cartridge:smarts-based-queries' multiply defined Label `Cartridge:substructure-and-exact-structure-search' multiply defined Label `Cartridge:substructure-operations' multiply defined Label `Cartridge:substructure-searches' multiply defined Label `Cartridge:the-rdkit-database-cartridge' multiply defined Label `Cartridge:tuning-queries' multiply defined Label `Cartridge:tutorial' multiply defined Label `Cartridge:using-stereochemistry' multiply defined Label `Cartridge:using-the-cartridge-from-python' multiply defined Label `Cartridge:using-the-mcs-code' multiply defined Label `Cartridge:what-is-this' multiply defined Label `Cartridge:working-with-fingerprints' multiply defined Label `Cookbook:cleaning-up-heterocycles' multiply defined Label `Cookbook:clustering-molecules' multiply defined Label `Cookbook:d-functionality-in-the-rdkit' multiply defined Label `Cookbook:details' multiply defined Label `Cookbook:introduction' multiply defined Label `Cookbook:license' multiply defined Label `Cookbook:manipulating-molecules' multiply defined Label `Cookbook:miscellaneous-topics' multiply defined Label `Cookbook:neutralizing-charged-molecules' multiply defined Label `Cookbook:parallel-conformation-generation' multiply defined Label `Cookbook:rdkit-cookbook' multiply defined Label `Cookbook:rmsd-calculation-between-n-molecules' multiply defined Label `Cookbook:using-a-different-aromaticity-model' multiply defined Label `Cookbook:using-custom-mcs-atom-types' multiply defined Label `Cookbook:using-scikit-learn-with-rdkit' multiply defined Label `Cookbook:what-is-this' multiply defined Label `Install:advanced' multiply defined Label `Install:building-from-source' multiply defined Label `Install:building-from-the-command-line-recommended' multiply defined Label `Install:building-the-java-wrappers' multiply defined Label `Install:building-the-rdkit' multiply defined Label `Install:conda-forge-package' multiply defined Label `Install:cross-platform-under-anaconda-python-fastest-install' multiply defined Label `Install:disabling-the-python-wrappers' multiply defined Label `Install:extra-software-to-install' multiply defined Label `Install:fedora-centos-and-rhel' multiply defined Label `Install:frequently-encountered-problems' multiply defined Label `Install:how-to-build-from-source-with-conda' multiply defined Label `Install:how-to-get-conda' multiply defined Label `Install:how-to-install-rdkit-with-conda' multiply defined Label `Install:installation' multiply defined Label `Install:installation-from-repositories' multiply defined Label `Install:installation-from-source' multiply defined Label `Install:installation-of-rdkit-binaries' multiply defined Label `Install:installing-and-using-postgresql-and-the-rdkit-postgresql-cartridge-from-a-conda-environment' multiply defined Label `Install:installing-boost' multiply defined Label `Install:installing-prerequisites-from-source' multiply defined Label `Install:introduction-to-anaconda' multiply defined Label `Install:license' multiply defined Label `Install:linux-and-os-x' multiply defined Label `Install:linux-x86-64-python-3-environment' multiply defined Label `Install:macos-10-12-sierra-python-3-environment' multiply defined Label `Install:optional-packages' multiply defined Label `Install:os-x' multiply defined Label `Install:prerequisites' multiply defined Label `Install:recommended-extras' multiply defined Label `Install:setup-and-preparation' multiply defined Label `Install:specifying-an-alternate-boost-installation' multiply defined Label `Install:specifying-an-alternate-python-installation' multiply defined Label `Install:testing-the-build-optional-but-recommended' multiply defined Label `Install:ubuntu-12-04-and-later' multiply defined Label `Install:windows' multiply defined Label `Overview:an-overview-of-the-rdkit' multiply defined Label `Overview:footnotes' multiply defined Label `Overview:history' multiply defined Label `Overview:integration-with-other-open-source-projects' multiply defined Label `Overview:license' multiply defined Label `Overview:open-source-toolkit-for-cheminformatics' multiply defined Label `Overview:operational' multiply defined Label `Overview:the-contrib-directory' multiply defined Label `Overview:usage-by-other-open-source-projects' multiply defined Label `Overview:what-is-it' multiply defined Latexmk: Summary of warnings from last run of (pdf)latex: Latex found 114 multiply defined reference(s) === TeX engine is 'pdfTeX' Latexmk: All targets () are up-to-date make[3]: Leaving directory '/<>/Docs/Book/_build/latex' pdflatex finished; the PDF files are in _build/latex. make[2]: Leaving directory '/<>/Docs/Book' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' cp -r rdkit obj-*/ find /<> -name rdchem.so /<>/obj-arm-linux-gnueabihf/rdkit/Chem/rdchem.so #export RDBASE=/<> PYTHONPATH=/<>/obj-arm-linux-gnueabihf/ LD_LIBRARY_PATH="/<>/obj-arm-linux-gnueabihf//lib:" PYTHONPATH=/<>/obj-arm-linux-gnueabihf/:/<>/obj-arm-linux-gnueabihf//rdkit/Chem/ LD_LIBRARY_PATH="/<>/obj-arm-linux-gnueabihf//lib:" dh_auto_test cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=-j4 make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' Running tests... /usr/bin/ctest --force-new-ctest-process -j4 Test project /<>/obj-arm-linux-gnueabihf Start 1: testCoordGen Start 2: pyCoordGen Start 3: testDict Start 4: testRDValue 1/152 Test #4: testRDValue ........................ Passed 0.02 sec Start 5: testDataStructs 2/152 Test #5: testDataStructs .................... Passed 0.01 sec Start 6: testFPB 3/152 Test #6: testFPB ............................ Passed 0.01 sec Start 7: testMultiFPB 4/152 Test #7: testMultiFPB ....................... Passed 0.02 sec Start 8: pyBV 5/152 Test #2: pyCoordGen .........................***Exception: SegFault 0.96 sec Start 9: pyDiscreteValueVect 6/152 Test #9: pyDiscreteValueVect ................ Passed 0.48 sec Start 10: pySparseIntVect 7/152 Test #10: pySparseIntVect .................... Passed 0.48 sec Start 11: pyFPB 8/152 Test #1: testCoordGen ....................... Passed 2.19 sec Start 12: testTransforms 9/152 Test #12: testTransforms ..................... Passed 0.01 sec Start 13: testGrid 10/152 Test #13: testGrid ........................... Passed 0.09 sec Start 14: testPyGeometry 11/152 Test #8: pyBV ............................... Passed 2.28 sec Start 15: testMatrices 12/152 Test #15: testMatrices ....................... Passed 0.01 sec Start 16: testAlignment 13/152 Test #16: testAlignment ...................... Passed 0.02 sec Start 17: pyAlignment 14/152 Test #11: pyFPB .............................. Passed 0.49 sec Start 18: testOptimizer 15/152 Test #18: testOptimizer ...................... Passed 0.01 sec Start 19: testUFFForceField 16/152 Test #19: testUFFForceField .................. Passed 0.18 sec Start 20: testMMFFForceField 17/152 Test #3: testDict ........................... Passed 2.61 sec Start 21: pyForceFieldConstraints 18/152 Test #14: testPyGeometry ..................... Passed 0.62 sec Start 22: testDistGeom 19/152 Test #17: pyAlignment ........................ Passed 0.54 sec Start 23: pyDistGeom 20/152 Test #22: testDistGeom ....................... Passed 0.02 sec Start 24: graphmolTest1 21/152 Test #23: pyDistGeom ......................... Passed 0.51 sec Start 25: graphmolcpTest 22/152 Test #25: graphmolcpTest ..................... Passed 0.04 sec Start 26: graphmolqueryTest 23/152 Test #26: graphmolqueryTest .................. Passed 0.04 sec Start 27: graphmolMolOpsTest 24/152 Test #21: pyForceFieldConstraints ............***Exception: SegFault 1.01 sec Start 28: graphmoltestCanon 25/152 Test #28: graphmoltestCanon .................. Passed 0.02 sec Start 29: graphmoltestChirality 26/152 Test #29: graphmoltestChirality .............. Passed 0.12 sec Start 30: graphmoltestPickler 27/152 Test #30: graphmoltestPickler ................ Passed 0.66 sec Start 31: graphmoltestPicklerGlobalSetting 28/152 Test #31: graphmoltestPicklerGlobalSetting ... Passed 0.04 sec Start 32: graphmolIterTest 29/152 Test #32: graphmolIterTest ................... Passed 0.04 sec Start 33: hanoiTest 30/152 Test #27: graphmolMolOpsTest ................. Passed 4.79 sec Start 34: graphmolMemTest1 31/152 Test #34: graphmolMemTest1 ................... Passed 0.02 sec Start 35: resMolSupplierTest 32/152 Test #35: resMolSupplierTest ................. Passed 1.46 sec Start 36: molBundleTest 33/152 Test #36: molBundleTest ...................... Passed 0.04 sec Start 37: testSGroup 34/152 Test #37: testSGroup ......................... Passed 0.05 sec Start 38: test-valgrind 35/152 Test #38: test-valgrind ...................... Passed 0.04 sec Start 39: graphmolTestsCatch 36/152 Test #39: graphmolTestsCatch ................. Passed 0.05 sec Start 40: graphmolSGroupCatch 37/152 Test #40: graphmolSGroupCatch ................ Passed 0.02 sec Start 41: testDepictor 38/152 Test #41: testDepictor ....................... Passed 0.67 sec Start 42: pyDepictor 39/152 Test #42: pyDepictor .........................***Exception: SegFault 0.99 sec Start 43: smiTest1 40/152 Test #43: smiTest1 ........................... Passed 0.05 sec Start 44: smiTest2 41/152 Test #44: smiTest2 ........................... Passed 0.02 sec Start 45: cxsmilesTest 42/152 Test #45: cxsmilesTest ....................... Passed 0.04 sec Start 46: smaTest1 43/152 Test #46: smaTest1 ........................... Passed 0.28 sec Start 47: smiTestCatch 44/152 Test #47: smiTestCatch ....................... Passed 0.05 sec Start 48: fileParsersTest1 45/152 Test #48: fileParsersTest1 ................... Passed 26.44 sec Start 49: testMolSupplier 46/152 Test #49: testMolSupplier .................... Passed 0.41 sec Start 50: testMolWriter 47/152 Test #50: testMolWriter ...................... Passed 0.55 sec Start 51: testTplParser 48/152 Test #51: testTplParser ...................... Passed 0.05 sec Start 52: testMol2ToMol 49/152 Test #52: testMol2ToMol ...................... Passed 0.06 sec Start 53: testSequence 50/152 Test #53: testSequence ....................... Passed 0.07 sec Start 54: testExtendedStereoParsing 51/152 Test #54: testExtendedStereoParsing .......... Passed 0.04 sec Start 55: fileParsersCatchTest 52/152 Test #55: fileParsersCatchTest ............... Passed 0.06 sec Start 56: testPropertyLists 53/152 Test #56: testPropertyLists .................. Passed 0.04 sec Start 57: testSubstructMatch 54/152 Test #20: testMMFFForceField ................. Passed 37.29 sec Start 58: substructTestCatch 55/152 Test #58: substructTestCatch ................. Passed 0.04 sec Start 59: testReaction 56/152 Test #59: testReaction ....................... Passed 0.51 sec Start 60: testReactionFingerprints 57/152 Test #60: testReactionFingerprints ........... Passed 0.08 sec Start 61: testEnumeration 58/152 Test #57: testSubstructMatch ................. Passed 0.97 sec Start 62: rxnTestCatch 59/152 Test #62: rxnTestCatch ....................... Passed 0.06 sec Start 63: pyChemReactions 60/152 Test #63: pyChemReactions ....................***Exception: SegFault 0.92 sec Start 64: pyChemReactionEnumerations 61/152 Test #64: pyChemReactionEnumerations .........***Exception: SegFault 0.93 sec Start 65: pyChemReactionSanitize 62/152 Test #65: pyChemReactionSanitize .............***Exception: SegFault 1.02 sec Start 66: testChemTransforms 63/152 Test #66: testChemTransforms ................. Passed 0.20 sec Start 67: testSubgraphs1 64/152 Test #67: testSubgraphs1 ..................... Passed 0.60 sec Start 68: testSubgraphs2 65/152 Test #68: testSubgraphs2 ..................... Passed 0.04 sec Start 69: filterCatalogTest 66/152 Test #69: filterCatalogTest .................. Passed 0.25 sec Start 70: pyFilterCatalog 67/152 Test #70: pyFilterCatalog ....................***Exception: SegFault 1.27 sec Start 71: testFragCatalog 68/152 Test #71: testFragCatalog .................... Passed 2.07 sec Start 72: pyFragCatalog 69/152 Test #72: pyFragCatalog ......................***Exception: SegFault 1.01 sec Start 73: testDescriptors 70/152 Test #33: hanoiTest .......................... Passed 45.00 sec Start 74: testAUTOCORR2D 71/152 Test #74: testAUTOCORR2D ..................... Passed 0.90 sec Start 75: pyMolDescriptors 72/152 Test #75: pyMolDescriptors ...................***Exception: SegFault 1.11 sec Start 76: pyMolDescriptors3D 73/152 Test #76: pyMolDescriptors3D .................***Exception: SegFault 0.94 sec Start 77: testFingerprints 74/152 Test #73: testDescriptors .................... Passed 11.00 sec Start 78: testFingerprintGenerators 75/152 Test #78: testFingerprintGenerators .......... Passed 3.26 sec Start 79: pyTestGenerator 76/152 Test #79: pyTestGenerator ....................***Exception: SegFault 1.38 sec Start 80: testPartialCharges 77/152 Test #80: testPartialCharges ................. Passed 0.04 sec Start 81: pyPartialCharges 78/152 Test #81: pyPartialCharges ...................***Exception: SegFault 1.15 sec Start 82: testMolTransforms 79/152 Test #82: testMolTransforms .................. Passed 0.05 sec Start 83: pyMolTransforms 80/152 Test #83: pyMolTransforms ....................***Exception: SegFault 1.08 sec Start 84: testMMFFForceFieldHelpers 81/152 Test #61: testEnumeration .................... Passed 27.22 sec Start 85: testUFFForceFieldHelpers 82/152 Test #24: graphmolTest1 ...................... Passed 70.78 sec Start 86: testCrystalForceField 83/152 Test #86: testCrystalForceField .............. Passed 0.17 sec Start 87: pyForceFieldHelpers 84/152 Test #87: pyForceFieldHelpers ................***Exception: SegFault 1.21 sec Start 88: testDistGeomHelpers 85/152 Test #77: testFingerprints ................... Passed 23.45 sec Start 89: pyDistGeomHelpers 86/152 Test #89: pyDistGeomHelpers ..................***Exception: SegFault 1.62 sec Start 90: testMolAlign 87/152 Test #84: testMMFFForceFieldHelpers .......... Passed 13.31 sec Start 91: pyMolAlign 88/152 Test #85: testUFFForceFieldHelpers ........... Passed 13.32 sec Start 92: testFeatures 89/152 Test #92: testFeatures ....................... Passed 0.05 sec Start 93: pyChemicalFeatures 90/152 Test #91: pyMolAlign .........................***Exception: SegFault 1.00 sec Start 94: testShapeHelpers 91/152 Test #94: testShapeHelpers ................... Passed 0.06 sec Start 95: pyShapeHelpers 92/152 Test #93: pyChemicalFeatures .................***Exception: SegFault 0.86 sec Start 96: testMolCatalog 93/152 Test #96: testMolCatalog ..................... Passed 0.04 sec Start 97: pyMolCatalog 94/152 Test #95: pyShapeHelpers .....................***Exception: SegFault 0.86 sec Start 98: moldraw2DTest1 95/152 Test #97: pyMolCatalog .......................***Exception: SegFault 1.13 sec Start 99: moldraw2DTestCatch 96/152 Test #99: moldraw2DTestCatch ................. Passed 0.05 sec Start 100: moldraw2DRxnTest1 97/152 Test #100: moldraw2DRxnTest1 .................. Passed 0.08 sec Start 101: pyMolDraw2D 98/152 Test #101: pyMolDraw2D ........................***Exception: SegFault 1.47 sec Start 102: testFMCS 99/152 Test #102: testFMCS ........................... Passed 2.77 sec Start 103: pyFMCS 100/152 Test #103: pyFMCS .............................***Exception: SegFault 1.47 sec Start 104: FMCStest 101/152 Test #104: FMCStest ........................... Passed 0.05 sec Start 105: testMolHash 102/152 Test #105: testMolHash ........................ Passed 0.13 sec Start 106: pyMolHash 103/152 Test #98: moldraw2DTest1 ..................... Passed 7.39 sec Start 107: testMMPA 104/152 Test #106: pyMolHash ..........................***Exception: SegFault 0.93 sec Start 108: pyMMPA 105/152 Test #107: testMMPA ........................... Passed 0.38 sec Start 109: testStructChecker 106/152 Test #109: testStructChecker .................. Passed 0.23 sec Start 110: pyStructChecker 107/152 Test #110: pyStructChecker ....................***Exception: SegFault 1.03 sec Start 111: testReducedGraphs 108/152 Test #108: pyMMPA .............................***Exception: SegFault 1.36 sec Start 112: pyReducedGraphs 109/152 Test #111: testReducedGraphs .................. Passed 0.12 sec Start 113: trajectoryTest 110/152 Test #112: pyReducedGraphs ....................***Exception: SegFault 0.95 sec Start 114: substructLibraryTest 111/152 Test #113: trajectoryTest ..................... Passed 1.41 sec Start 115: pySubstructLibrary 112/152 Test #114: substructLibraryTest ............... Passed 1.36 sec Start 116: testRGroupDecomp 113/152 Test #115: pySubstructLibrary .................***Exception: SegFault 1.40 sec Start 117: pyRGroupDecomposition 114/152 Test #116: testRGroupDecomp ................... Passed 0.73 sec Start 118: molInterchangeTest1 115/152 Test #118: molInterchangeTest1 ................ Passed 0.09 sec Start 119: pyMolInterchange 116/152 Test #117: pyRGroupDecomposition ..............***Exception: SegFault 0.93 sec Start 120: testSLNParse 117/152 Test #120: testSLNParse ....................... Passed 0.06 sec Start 121: pySLNParse 118/152 Test #119: pyMolInterchange ...................***Exception: SegFault 1.22 sec Start 122: pyGraphMolWrap 119/152 Test #121: pySLNParse .........................***Exception: SegFault 1.40 sec Start 123: pyTestConformerWrap 120/152 Test #122: pyGraphMolWrap .....................***Exception: SegFault 1.38 sec Start 124: pyTestTrajectory 121/152 Test #123: pyTestConformerWrap ................***Exception: SegFault 1.01 sec Start 125: pyTestSGroups 122/152 Test #124: pyTestTrajectory ...................***Exception: SegFault 1.29 sec Start 126: pyTestThreads 123/152 Test #125: pyTestSGroups ......................***Exception: SegFault 1.42 sec Start 127: pyTestPropertyLists 124/152 Test #126: pyTestThreads ......................***Exception: SegFault 1.26 sec Start 128: molStandardizeTest 125/152 Test #128: molStandardizeTest ................. Passed 0.79 sec Start 129: molNormalizeTest 126/152 Test #127: pyTestPropertyLists ................***Exception: SegFault 1.49 sec Start 130: molValidateTest 127/152 Test #129: molNormalizeTest ................... Passed 0.18 sec Start 131: molChargeTest 128/152 Test #130: molValidateTest .................... Passed 0.11 sec Start 132: molTautomerTest 129/152 Test #131: molChargeTest ...................... Passed 0.67 sec Start 133: molStandardizeSmallTest 130/152 Test #133: molStandardizeSmallTest ............ Passed 0.22 sec Start 134: molFragmentTest 131/152 Test #134: molFragmentTest .................... Passed 0.36 sec Start 135: molStandardizeCatchTest 132/152 Test #135: molStandardizeCatchTest ............ Passed 0.22 sec Start 136: pyMolStandardize 133/152 Test #136: pyMolStandardize ...................***Exception: SegFault 1.64 sec Start 137: testQuery 134/152 Test #137: testQuery .......................... Passed 0.01 sec Start 138: testMatCalc 135/152 Test #138: testMatCalc ........................ Passed 0.01 sec Start 139: pyMatCalc 136/152 Test #132: molTautomerTest .................... Passed 3.99 sec Start 140: testSimDivPickers 137/152 Test #140: testSimDivPickers .................. Passed 0.02 sec Start 141: pySimDivPickers 138/152 Test #139: pyMatCalc .......................... Passed 3.14 sec Start 142: pyRanker 139/152 Test #142: pyRanker ........................... Passed 1.30 sec Start 143: testChemicalFeatures 140/152 Test #143: testChemicalFeatures ............... Passed 0.02 sec Start 144: pyFeatures 141/152 Test #144: pyFeatures .........................***Exception: SegFault 1.61 sec Start 145: pythonTestDbCLI 142/152 Test #141: pySimDivPickers .................... Passed 10.60 sec Start 146: pythonTestDirML 143/152 Test #145: pythonTestDbCLI ....................***Failed 9.21 sec FFFFFFFFFFFF ====================================================================== FAIL: test1Create (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 18, in test1Create self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test2_1SearchFPs (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 70, in test2_1SearchFPs self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_2SearchAtomPairs (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 102, in test2_2SearchAtomPairs self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_3SearchTorsions (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 135, in test2_3SearchTorsions self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_4SearchProps (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 167, in test2_4SearchProps self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_5SearchSmarts (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 206, in test2_5SearchSmarts self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test2_6SearchBoth (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 264, in test2_6SearchBoth self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test2_7SearchGobbi (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 288, in test2_7SearchGobbi self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test2_8SearchThresh (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 323, in test2_8SearchThresh self.assertTrue(os.path.exists('testData/bzr/Compounds.sqlt')) AssertionError: False is not true ====================================================================== FAIL: test4CreateOptions (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 360, in test4CreateOptions self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test5TestBackwardsCompat (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 482, in test5TestBackwardsCompat self.assertFalse(res) AssertionError: -11 is not false ====================================================================== FAIL: test6Update (__main__.TestCase) ---------------------------------------------------------------------- Traceback (most recent call last): File "TestDbCLI.py", line 518, in test6Update self.assertFalse(res) AssertionError: -11 is not false ---------------------------------------------------------------------- Ran 12 tests in 8.834s FAILED (failures=12) !!! TEST FAILURE: python TestDbCLI.py {'dir': 'DbCLI'} Start 147: pythonTestDirDataStructs 144/152 Test #147: pythonTestDirDataStructs ...........***Failed 3.71 sec ..............UnitTestcBitVect.py:42: DeprecationWarning: Please use assertRaisesRegex instead. with self.assertRaisesRegexp(IndexError, ""): .................... ---------------------------------------------------------------------- Ran 34 tests in 0.017s OK ..... ---------------------------------------------------------------------- Ran 5 tests in 0.040s OK ....... ---------------------------------------------------------------------- Ran 7 tests in 0.006s OK !!! TEST FAILURE: python UnitTestDocTests.py {} Start 148: pythonTestDirDbase 145/152 Test #148: pythonTestDirDbase ................. Passed 1.97 sec Start 149: pythonTestDirSimDivFilters 146/152 Test #149: pythonTestDirSimDivFilters .........***Failed 1.34 sec !!! TEST FAILURE: python SimilarityPickers.py {} Start 150: pythonTestDirVLib 147/152 Test #150: pythonTestDirVLib ..................***Failed 2.39 sec ............. ---------------------------------------------------------------------- Ran 13 tests in 0.042s OK !!! TEST FAILURE: python UnitTestNodeLib.py {} !!! TEST FAILURE: python test_list.py {'dir': 'NodeLib'} Start 151: pythonTestDirChem 148/152 Test #151: pythonTestDirChem ..................***Exception: SegFault 1.11 sec Start 152: pythonTestSping 149/152 Test #152: pythonTestSping ....................***Exception: SegFault 1.63 sec 150/152 Test #146: pythonTestDirML ....................***Failed 43.95 sec ....... ---------------------------------------------------------------------- Ran 7 tests in 1.241s OK ............ ---------------------------------------------------------------------- Ran 12 tests in 0.351s OK . ---------------------------------------------------------------------- Ran 1 test in 0.109s OK ... ---------------------------------------------------------------------- Ran 3 tests in 0.005s OK ........ ---------------------------------------------------------------------- Ran 8 tests in 0.003s OK .... ---------------------------------------------------------------------- Ran 4 tests in 0.686s OK ..... ---------------------------------------------------------------------- Ran 5 tests in 0.008s OK ......... ---------------------------------------------------------------------- Ran 9 tests in 0.033s OK ............ ---------------------------------------------------------------------- Ran 12 tests in 0.007s OK ..... ---------------------------------------------------------------------- Ran 5 tests in 0.063s OK . ---------------------------------------------------------------------- Ran 1 test in 0.001s OK ...... ---------------------------------------------------------------------- Ran 6 tests in 0.006s OK .... ---------------------------------------------------------------------- Ran 4 tests in 0.599s OK ...... ---------------------------------------------------------------------- Ran 6 tests in 0.070s OK .. ---------------------------------------------------------------------- Ran 2 tests in 0.464s OK .......... ---------------------------------------------------------------------- Ran 10 tests in 0.036s OK ..... ---------------------------------------------------------------------- Ran 5 tests in 0.183s OK .. ---------------------------------------------------------------------- Ran 2 tests in 0.008s OK ... ---------------------------------------------------------------------- Ran 3 tests in 0.028s OK !!! TEST FAILURE: python UnitTestMolDescriptors.py {} ... ---------------------------------------------------------------------- Ran 3 tests in 0.880s OK ...... ---------------------------------------------------------------------- Ran 6 tests in 1.429s OK !!! TEST FAILURE: python UnitTestPackage.py {} .... ---------------------------------------------------------------------- Ran 4 tests in 0.032s OK ..... ---------------------------------------------------------------------- Ran 5 tests in 12.773s OK .... ---------------------------------------------------------------------- Ran 4 tests in 0.005s OK .... ---------------------------------------------------------------------- Ran 4 tests in 0.002s OK .... ---------------------------------------------------------------------- Ran 4 tests in 0.046s OK !!! TEST FAILURE: python test_list.py {'dir': 'Descriptors'} !!! TEST FAILURE: python test_list.py {'dir': 'ModelPackage'} 151/152 Test #90: testMolAlign ....................... Passed 105.73 sec 152/152 Test #88: testDistGeomHelpers ................ Passed 150.59 sec 71% tests passed, 44 tests failed out of 152 Total Test time (real) = 225.73 sec The following tests FAILED: 2 - pyCoordGen (SEGFAULT) 21 - pyForceFieldConstraints (SEGFAULT) 42 - pyDepictor (SEGFAULT) 63 - pyChemReactions (SEGFAULT) 64 - pyChemReactionEnumerations (SEGFAULT) 65 - pyChemReactionSanitize (SEGFAULT) 70 - pyFilterCatalog (SEGFAULT) 72 - pyFragCatalog (SEGFAULT) 75 - pyMolDescriptors (SEGFAULT) 76 - pyMolDescriptors3D (SEGFAULT) 79 - pyTestGenerator (SEGFAULT) 81 - pyPartialCharges (SEGFAULT) 83 - pyMolTransforms (SEGFAULT) 87 - pyForceFieldHelpers (SEGFAULT) 89 - pyDistGeomHelpers (SEGFAULT) 91 - pyMolAlign (SEGFAULT) 93 - pyChemicalFeatures (SEGFAULT) 95 - pyShapeHelpers (SEGFAULT) 97 - pyMolCatalog (SEGFAULT) 101 - pyMolDraw2D (SEGFAULT) 103 - pyFMCS (SEGFAULT) 106 - pyMolHash (SEGFAULT) 108 - pyMMPA (SEGFAULT) 110 - pyStructChecker (SEGFAULT) 112 - pyReducedGraphs (SEGFAULT) 115 - pySubstructLibrary (SEGFAULT) 117 - pyRGroupDecomposition (SEGFAULT) 119 - pyMolInterchange (SEGFAULT) 121 - pySLNParse (SEGFAULT) 122 - pyGraphMolWrap (SEGFAULT) 123 - pyTestConformerWrap (SEGFAULT) 124 - pyTestTrajectory (SEGFAULT) 125 - pyTestSGroups (SEGFAULT) 126 - pyTestThreads (SEGFAULT) 127 - pyTestPropertyLists (SEGFAULT) 136 - pyMolStandardize (SEGFAULT) 144 - pyFeatures (SEGFAULT) 145 - pythonTestDbCLI (Failed) 146 - pythonTestDirML (Failed) 147 - pythonTestDirDataStructs (Failed) 149 - pythonTestDirSimDivFilters (Failed) 150 - pythonTestDirVLib (Failed) 151 - pythonTestDirChem (SEGFAULT) 152 - pythonTestSping (SEGFAULT) Errors while running CTest make[2]: *** [Makefile:132: test] Error 8 make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' dh_auto_test: cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=-j4 returned exit code 2 make[1]: [debian/rules:123: override_dh_auto_test] Error 255 (ignored) make[1]: Leaving directory '/<>' fakeroot debian/rules binary-arch dh binary-arch --with python3 --buildsystem=cmake --parallel dh_testroot -a -O--buildsystem=cmake -O--parallel dh_prep -a -O--buildsystem=cmake -O--parallel debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles /<>/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f External/catch/CMakeFiles/catch.dir/build.make External/catch/CMakeFiles/catch.dir/depend make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/depend make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/catch /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/catch /<>/obj-arm-linux-gnueabihf/External/catch/CMakeFiles/catch.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/INCHI-API /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/INCHI-API /<>/obj-arm-linux-gnueabihf/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/CoordGen /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/CoordGen /<>/obj-arm-linux-gnueabihf/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/catch/CMakeFiles/catch.dir/build.make External/catch/CMakeFiles/catch.dir/build make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/build make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/External/INCHI-API && /usr/bin/cmake -E copy /<>/External/INCHI-API/python/noinchi.py /<>/rdkit/Chem/inchi.py make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'External/catch/CMakeFiles/catch.dir/build'. make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'External/CoordGen/CMakeFiles/coordgen_support.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Built target coordgen_support make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Built target catch make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/RDGeneral.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]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDStreams /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDStreams /<>/obj-arm-linux-gnueabihf/Code/RDStreams/CMakeFiles/RDStreams.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/DependInfo.cmake --color= [ 0%] Built target inchi_support make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/RDGeneral.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/RDStreams/CMakeFiles/RDStreams.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Built target RDGeneral make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/depend make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/EigenSolvers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers /<>/obj-arm-linux-gnueabihf/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake --color= [ 2%] Built target RDStreams make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend [ 3%] Built target hc make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDBoost /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDBoost /<>/obj-arm-linux-gnueabihf/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/RDBoost/CMakeFiles/RDBoost.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testDict.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/DataStructs.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Built target RDBoost make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/depend [ 3%] Built target EigenSolvers [ 4%] Built target testDict make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend [ 6%] Built target DataStructs make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDGeneral /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDGeneral /<>/obj-arm-linux-gnueabihf/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/RDBoost/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/RDBoost/Wrap /<>/obj-arm-linux-gnueabihf/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics /<>/obj-arm-linux-gnueabihf/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Catalogs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Catalogs /<>/obj-arm-linux-gnueabihf/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testRDValue.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Numerics/CMakeFiles/testMatrices.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Catalogs/CMakeFiles/Catalogs.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 8%] Built target rdBase [ 8%] Built target testRDValue make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/depend make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Query /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Query /<>/obj-arm-linux-gnueabihf/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataManip/MetricMatrixCalc /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= [ 8%] Built target Catalogs [ 9%] Built target testMatrices make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake --color= cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataManip/MetricMatrixCalc/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap /<>/obj-arm-linux-gnueabihf/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Query/CMakeFiles/testQuery.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Built target testMatCalc make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/depend [ 9%] Built target testQuery make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh /<>/obj-arm-linux-gnueabihf/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/InfoTheory /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 9%] Built target SimDivPickers make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 10%] Built target rdMetricMatrixCalc make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build [ 10%] Built target Clustering make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend [ 10%] Built target InfoTheory make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs /<>/obj-arm-linux-gnueabihf/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake --color= make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/RDGeometryLib.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testMultiFPB.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build [ 11%] Built target RDGeometryLib make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testDataStructs.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend [ 11%] Built target testMultiFPB make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DataStructs/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap /<>/obj-arm-linux-gnueabihf/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testFPB.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 12%] Built target testDataStructs make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry /<>/obj-arm-linux-gnueabihf/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build [ 13%] Built target testFPB make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/testGrid.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Geometry/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap /<>/obj-arm-linux-gnueabihf/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/testTransforms.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 13%] Built target testGrid make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 15%] Built target cDataStructs [ 16%] Built target testTransforms make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/SimDivPickers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap /<>/obj-arm-linux-gnueabihf/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/InfoTheory/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap /<>/obj-arm-linux-gnueabihf/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build [ 16%] Built target rdGeometry make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ML/Data /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ML/Data /<>/obj-arm-linux-gnueabihf/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build [ 17%] Built target testSimDivPickers make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ML/Data/CMakeFiles/cQuantize.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Built target rdSimDivPickers [ 19%] Built target rdInfoTheory make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= [ 19%] Built target cQuantize make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake --color= [ 20%] Built target ChemicalFeatures make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build [ 20%] Built target Alignment 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 make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= [ 21%] Built target testChemicalFeatures make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Alignment/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap /<>/obj-arm-linux-gnueabihf/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/GraphMol.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build [ 26%] Built target GraphMol make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf/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 make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build [ 26%] Built target testAlignment make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build [ 26%] Built target rdAlignment make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake --color= make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 26%] Built target Trajectory make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake --color= [ 28%] Built target SmilesParse make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build [ 28%] Built target SubstructMatch make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build [ 28%] Built target MolTransforms make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build'. make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Built target Subgraphs make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' 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 '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Built target PartialCharges make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 28%] Built target MolCatalog make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target ReducedGraphs make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake --color= [ 30%] Built target MolInterchange make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 30%] Built target SLNParse make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake --color= make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build [ 30%] Built target rdqueries make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Built target rdtrajectory make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake --color= [ 32%] Built target Optimizer [ 33%] Built target rdChemicalFeatures make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/test-valgrind.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build [ 34%] Built target graphmolIterTest make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 34%] Built target test-valgrind make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/DependInfo.cmake --color= [ 35%] Built target graphmolcpTest [ 35%] Built target graphmolqueryTest make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 35%] Built target graphmolMemTest1 make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/depend [ 35%] Built target graphmoltestCanon make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= [ 35%] Built target ChemTransforms make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend [ 36%] Built target graphmolSGroupCatch make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build [ 37%] Built target smaTest1 make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build [ 37%] Built target smiTest2 make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.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 '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build [ 39%] Built target Fingerprints [ 40%] Built target FilterCatalog 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 make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake --color= [ 41%] Built target testSubgraphs2 make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/depend [ 41%] Built target testSubgraphs1 make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/PartialCharges/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolTransforms/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 41%] Built target testPartialCharges make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= [ 42%] Built target FragCatalog make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake --color= [ 42%] Built target rdPartialCharges make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= [ 42%] Built target rdMolTransforms make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ReducedGraphs/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 43%] Built target MolChemicalFeatures make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build [ 44%] Built target ShapeHelpers make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake --color= [ 44%] Built target testReducedGraphs make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build [ 45%] Built target rdReducedGraphs make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SLNParse/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Built target SubstructLibrary make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build'. make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/DependInfo.cmake --color= [ 46%] Built target rdMolInterchange make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build [ 47%] Built target testSLNParse make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField /<>/obj-arm-linux-gnueabihf/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer /<>/obj-arm-linux-gnueabihf/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Built target rdSLNParse make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 48%] Built target testOptimizer make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ForceField/CMakeFiles/ForceField.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 52%] Built target ForceField [ 52%] Built target rdFingerprintGenerator make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ShapeHelpers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 53%] Built target rdMolChemicalFeatures make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend [ 55%] Built target rdchem make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build [ 55%] Built target rdShapeHelpers make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Built target ForceFieldHelpers make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DistGeom /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DistGeom /<>/obj-arm-linux-gnueabihf/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap /<>/obj-arm-linux-gnueabihf/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DistGeom/CMakeFiles/DistGeometry.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 57%] Built target MolAlign make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend [ 58%] Built target DistGeometry make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend [ 58%] Built target rdForceFieldHelpers make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/CoordGen/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap /<>/obj-arm-linux-gnueabihf/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 59%] Built target rdForceField cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DistGeom /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DistGeom /<>/obj-arm-linux-gnueabihf/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DistGeom/CMakeFiles/testDistGeom.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 59%] Built target testDistGeom make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/DistGeom/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap /<>/obj-arm-linux-gnueabihf/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 59%] Built target Depictor make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend [ 59%] Built target DistGeomHelpers make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 59%] Built target rdCoordGen make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build [ 60%] Built target DistGeom make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target FileParsers make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/depend make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/External/CoordGen /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/External/CoordGen /<>/obj-arm-linux-gnueabihf/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField/UFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF /<>/obj-arm-linux-gnueabihf/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/ForceField/MMFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF /<>/obj-arm-linux-gnueabihf/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'External/CoordGen/CMakeFiles/testCoordGen.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/hanoiTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target testCoordGen make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend [ 64%] Built target hanoiTest make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake --color= [ 64%] Built target testMMFFForceField make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake --color= [ 64%] Built target testUFFForceField make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' 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 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTest1.dir/build'. make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target graphmoltestChirality make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend [ 65%] Built target graphmolMolOpsTest [ 65%] Built target graphmoltestPickler [ 65%] Built target graphmolTest1 make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake --color= make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/testSGroup.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/molBundleTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target resMolSupplierTest make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend [ 65%] Built target testSGroup make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol /<>/obj-arm-linux-gnueabihf/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake --color= [ 65%] Built target molBundleTest make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend [ 65%] Built target graphmoltestPicklerGlobalSetting make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Depictor/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target graphmolTestsCatch [ 65%] Built target testDepictor make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= [ 65%] Built target smiTest1 make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake --color= [ 65%] Built target rdDepictor make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build [ 66%] Built target smiTestCatch make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 66%] Built target cxsmilesTest make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake --color= [ 66%] Built target testTplParser make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake --color= [ 67%] Built target fileParsersCatchTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testSequence [ 67%] Built target testPropertyLists make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/depend make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/depend [ 67%] Built target testMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake --color= cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target fileParsersTest1 make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build [ 67%] Built target testExtendedStereoParsing make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake --color= [ 67%] Built target testMolWriter make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testMol2ToMol make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build [ 67%] Built target testSubstructMatch make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build [ 67%] Built target substructTestCatch make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FilterCatalog/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 67%] Built target testChemTransforms make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake --color= [ 67%] Built target filterCatalogTest make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend [ 69%] Built target Descriptors make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FragCatalog/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build [ 70%] Built target rdfiltercatalog make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build [ 71%] Built target testFragCatalog make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 71%] Built target testFingerprintGenerators make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/MMFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake --color= [ 71%] Built target rdfragcatalog make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/UFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= [ 71%] Built target testFingerprints make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ForceFieldHelpers/CrystalFF /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build [ 72%] Built target testMolTransforms make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 73%] Built target testMMFFForceFieldHelpers make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/DistGeomHelpers/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= [ 73%] Built target testUFFForceFieldHelpers make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' 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 make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake --color= [ 73%] Built target testCrystalForceField make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolAlign/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' 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/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build [ 74%] Built target rdDistGeom make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build [ 74%] Built target testMolAlign make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build [ 74%] Built target rdMolAlign make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolCatalog/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= [ 74%] Built target testFeatures make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Built target testShapeHelpers make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Built target testMolCatalog make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 75%] Built target rdMolCatalog make -f Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/StructChecker /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/DependInfo.cmake --color= [ 76%] Built target FMCS make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake --color= [ 76%] Built target MolHash make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build [ 76%] Built target MMPA make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/SubstructLibrary/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build [ 78%] Built target StructChecker make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend [ 78%] Built target substructLibraryTest make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake --color= [ 79%] Built target trajectoryTest make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend [ 80%] Built target rdSubstructLibrary make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build [ 80%] Built target RGroupDecomposition make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build [ 80%] Built target molInterchangeTest1 make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build [ 82%] Built target rdmolfiles make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Descriptors/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build [ 85%] Built target ChemReactions make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 85%] Built target testDescriptors make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake --color= make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= [ 86%] Built target testAUTOCORR2D make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/FMCS/Test /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test /<>/obj-arm-linux-gnueabihf/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build [ 86%] Built target rdMolDescriptors make -f Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target testFMCS make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build [ 86%] Built target rdFMCS make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolHash/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake --color= make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend [ 86%] 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 '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MMPA/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= [ 86%] Built target testMolHash make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build make -f Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/StructChecker /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build [ 86%] Built target rdMolHash make -f Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build.make Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/depend [ 86%] Built target rdMMPA make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend [ 86%] Built target testMMPA make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/StructChecker/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build'. make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/RGroupDecomposition/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target testStructChecker make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build.make Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 86%] Built target testRGroupDecomp make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake --color= [ 86%] Built target rdStructChecker make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend [ 86%] Built target rdRGroupDecomposition make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 87%] Built target testEnumeration make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build'. make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake --color= [ 90%] Built target MolStandardize make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/ChemReactions/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake --color= [ 90%] Built target rxnTestCatch make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Built target testReactionFingerprints cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Built target testReaction make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build'. make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Built target rdChemReactions make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build [ 92%] Built target MolDraw2D make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake --color= [ 93%] Built target molChargeTest make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' 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/build [ 93%] Built target molStandardizeTest make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target molNormalizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/depend [ 94%] Built target molFragmentTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake --color= [ 94%] Built target molValidateTest make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolStandardize/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target molStandardizeSmallTest make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target molStandardizeCatchTest [ 95%] Built target molTautomerTest make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake --color= [ 95%] Built target moldraw2DRxnTest1 make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend [ 97%] Built target rdMolStandardize make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/MolDraw2D/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap /<>/obj-arm-linux-gnueabihf/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target moldraw2DTest1 make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 99%] Built target rdMolDraw2D [ 99%] Built target moldraw2DTestCatch [100%] Built target rdmolops make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/lib/cmake/rdkit/rdkit-targets.cmake -- Installing: /<>/debian/tmp/usr/lib/cmake/rdkit/rdkit-targets-none.cmake -- Installing: /<>/debian/tmp/usr/lib/cmake/rdkit/rdkit-config.cmake -- Installing: /<>/debian/tmp/usr/lib/cmake/rdkit/rdkit-config-version.cmake -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/README -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt/pidQt.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt/pidQt4.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/pidtest.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/pstests.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/testallps.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart/pidPyart.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart/Fontmapping.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/pid.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/pidPS.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/fontinfo.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/psmetrics.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/latin1MetricsCache.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/utils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/pagesizes.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX/pidWxDc.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX/pidWX.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/patches -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/patches/Imaging-1.1-fixplugin-path -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/patches/Imaging-1.1.1.diff -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples/tkCanvasPIL-with-scrollbars.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples/formatted-strings.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples/tkCanvas-with-scrollbars.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/colors.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/util -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/util/HTMLPiddler.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/util/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/ReportLab -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/ReportLab/pidReportLab.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/ReportLab/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfdoc.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfgeom.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfgen.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfutils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfmetrics.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pidPDF.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/stringformat.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/TK -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/TK/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/TK/pidTK.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/SVG -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/SVG/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/SVG/pidSVG.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pil.1 -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-14.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/removemedium.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/metrics.dat -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-18.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-10.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-10.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-18.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-24.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pil -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-14.pbm -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pidPIL.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/SimpleEnum -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/SimpleEnum/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/SimpleEnum/Enumerator.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/PropertyMol.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/DescriptorUtilities.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/TemplateExpand.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/SDFToCSV.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/BulkTester.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/AlignDepict.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapParser.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapPoint.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMaps.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Lipinski.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/SATIS.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FunctionalGroups.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Randomize.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/SaltRemover.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Descriptors3D.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/PyMol.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EnumerateHeterocycles.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/ClusterMols.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/MolSimilarity.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/SimilarityScreener.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/FingerprintMols.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/DbFpSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Pairs.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Torsions.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Utils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Sheridan.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Graphs.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolSurf.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/TemplateAlign.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/PandasTools.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/FeatDirUtilsRD.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/ShowFeats.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MCS.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/metal.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/validations.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/utils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/tautomer.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/validate.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/resonance.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/fragment.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/errors.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/charge.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/normalize.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/standardize.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/FingerprintUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/Loader_sa.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/Loader.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/Loader_orig.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolCatalog.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AllChem.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/fmcs -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/fmcs/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/fmcs/fmcs -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/fmcs/fmcs.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MACCSkeys.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatFinderCLI.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Crippen.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey/MolKey.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey/InchiInfo.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ShowMols.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FragmentCatalog.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FilterCatalog.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/BuildFragmentCatalog.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/SubshapeAligner.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/SubshapeBuilder.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/testCombined.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/SubshapeObjects.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/BuilderUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fragments.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/EmbedLib.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/Pharmacophore.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/ExcludedVolume.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/GraphDescriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/MolSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/DbMolSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/QED.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemicalForceFields.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/MurckoScaffold.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/Fingerprinter.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/EState_VSA.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/EState.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/AtomTypes.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FastSDMolSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Gobbi_Pharm2D.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/LazyGenerator.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Generate.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Utils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Matcher.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/SigFactory.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ReducedGraphs.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EnumerateStereoisomers.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/TorsionFingerprints.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FragmentMatcher.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Recap.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemicalFeatures.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Descriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/IPythonConsole.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/canvasbase.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/mplCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/MolDrawing.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/aggCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/qtCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/cairoCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/spingCanvas.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/FreeSans.ttf -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/SimilarityMaps.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fraggle -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fraggle/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fraggle/FraggleSim.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/BRICS.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/inchi.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/DSViewer.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters/SimilarityPickers.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/Metric -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/Metric/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/RDLogger.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DistanceGeometry -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DistanceGeometry/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Geometry -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Geometry/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Avalon -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Avalon/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Numerics -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Numerics/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/TestRunner.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/RDRandom.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/ClassificationModel.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/CrossValidate.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/EnrichPlot.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/CompositeRun.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MatOps.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/CompoundDescriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/Parser.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/MoleculeDescriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/Descriptors.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/files.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/Quantize.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/DataUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/Transforms.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/SplitData.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/FindQuantBounds.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/MLData.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/Stats.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/GrowComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/AnalyzeComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/SigTree.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/DecTree.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/BuildQuantTree.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/Forest.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/ID3.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/randomtest.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/Tree.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/BuildSigTree.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/QuantTree.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/CrossValidate.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/PruneTree.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/TreeUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/TreeVis.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/BitRank.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/BitClusterer.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/entropy.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring/Scoring.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Butina.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Standardize.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/ClusterVis.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/ClusterUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Murtagh.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Clusters.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/murtagh_test.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Resemblance.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/Packager.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/PackageUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/BuildComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT/Risk.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ScreenComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNModel.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/DistFunctions.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/CrossValidate.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNRegressionModel.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNClassificationModel.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MLUtils -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MLUtils/VoteImg.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MLUtils/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/NetNode.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/ActFuncs.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/Trainers.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/Network.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/CrossValidate.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/architecture.txt -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/Composite.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/BayesComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/AdjustComposite.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/_py2_pickle.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/test1.gif -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/test3.gif -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/cactvs.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/chemdraw.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/fileutils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/chemutils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/12h.gif -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/listutils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/comhack.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/retest.txt -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/spiral.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/test2.gif -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/chemdraw_qax.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ForceField -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ForceField/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbInfo.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbModule.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbConnection.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbReport.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/StorageUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbResultSet.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/RDConfig.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/BitEnsembleDb.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/TopNContainer.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/BitUtils.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/LazySignature.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/VectCollection.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/HierarchyVis.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/BitEnsemble.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/six.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Filter.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Output.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Node.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Supply.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Transform.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmartsRemover.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/DbPickleSupplier.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesSupply.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/__init__.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmartsMolFilter.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesDupeFilter.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesOutput.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/__pycache__ -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/demo.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/DbMolSupply.py -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SDSupply.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Data -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/test_data -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/test_data/run_tests.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/test_data/test_set3.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/test_data/wehi_mols.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Pains/wehi_pains.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Crippen.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/BaseFeatures.fdef -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Salts.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/rddata.sql -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/FragmentDescriptors.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/MolStandardize -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/MolStandardize/normalizations.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/MolStandardize/acid_base_pairs2.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/MolStandardize/fragmentPatterns.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/MolStandardize/tautomerTransforms.in -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/MolStandardize/acid_base_pairs.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/RDData.sqlt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/Functional_Group_Hierarchy.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/struchk -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.trn -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.chk -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.opt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI/first_200.props.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI/first_200.tpsa.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI/first_5K.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/NCI/first_5k.tpsa.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/FunctionalGroups.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/RDTests.sqlt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/DTDs -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Model.dtd -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Dataset.dtd -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/DTDs/validate.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/bench2.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/mols.1000.pkl.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/fps.1000.counts.pkl.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/patty_rules.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Data/SmartsLib/RLewis_smarts.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-RingSubstitution.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GenericCores.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-MutipleCores.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/compounds.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/MolStandardize.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-example-lactam.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-DummyCores.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-StereoChemTest.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Notebooks/FingerprintGenerators.ipynb -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Overview.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/index.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/GettingStartedInC++.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Install.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/BackwardsIncompatibleChanges.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Makefile -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/RDKit_Book.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/api-docs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/conf.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdChemicalFeatures.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.Tree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdFreeSASA.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.QED.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.SimDivFilters.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.Pairs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.Sheridan.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Scoring.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Scaffolds.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.HierarchyVis.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SDSupply.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FastSDMolSupplier.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.Stats.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.KNNModel.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Descriptors3D.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.listutils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.canvasbase.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.MLUtils.VoteImg.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolDescriptors.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.ModelPackage.Packager.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FunctionalGroups.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.BuildQuantTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.DbFpSupplier.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.NaiveBayes.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Resemblance.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.TemplateExpand.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.GraphDescriptors.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.MatOps.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.StorageUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.ModelPackage.PackageUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.FeatMapUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolInterchange.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdmolfiles.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.SimDivFilters.rdSimDivPickers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.ModelPackage.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMMPA.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.Trainers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.AnalyzeComposite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.AtomTypes.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdqueries.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdmolops.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.Filter.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.inchi.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.DistFunctions.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.SimpleEnum.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdchem.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.PandasTools.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/modules.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.SimDivFilters.SimilarityPickers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.Utils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.LazySignature.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbResultSet.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolKey.MolKey.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.GrowComposite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.NetNode.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdPartialCharges.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.FeatMapParser.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdFingerprintGenerator.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.BitRank.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdCoordGen.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Avalon.pyAvalonTools.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdReducedGraphs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ShowMols.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Randomize.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.Output.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.SATIS.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdFMCS.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.Quantize.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Scoring.Scoring.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.RDLogger.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.PyMol.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Geometry.rdGeometry.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.testCombined.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesOutput.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolSurf.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.EnumerateStereoisomers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Recap.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolCatalog.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Features.FeatDirUtilsRD.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.BulkTester.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.TreeUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.ClusterMols.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.Forest.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Clusters.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.Loader.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Avalon.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.EState_VSA.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Numerics.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdSubstructLibrary.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MACCSkeys.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataManip.Metric.rdMetricMatrixCalc.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.CrossValidate.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.TestRunner.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Crippen.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataManip.Metric.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.BRICS.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.SplitData.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.SimilarityScreener.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemicalForceFields.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.aggCanvas.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolAlign.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Suppliers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.SubshapeAligner.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.Composite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.mplCanvas.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ReducedGraphs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Numerics.rdAlignment.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.TemplateAlign.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbConnection.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.FindQuantBounds.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.Generate.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.randomtest.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.KNNClassificationModel.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.FingerprintMols.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.RDPaths.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolChemicalFeatures.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.ClusterUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Standardize.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.Transform.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdRGroupDecomposition.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.BayesComposite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdDistGeom.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.qtCanvas.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.Matcher.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Lipinski.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.BitUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Murtagh.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.SigFactory.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.Supply.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.chemdraw_qax.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.Transforms.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.files.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.DbPickleSupplier.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.DecTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.Fingerprinter.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.Utils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdinchi.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.DataUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.SubshapeObjects.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fraggle.FraggleSim.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.CrossValidate.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Clustering.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.LazyGenerator.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fragments.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Butina.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.EnrichPlot.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdtrajectory.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.BitEnsemble.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.PropertyMol.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolKey.InchiInfo.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolCatalog.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.AllChem.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.Node.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.MoleculeDescriptors.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DistanceGeometry.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.BuildComposite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Geometry.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FragmentCatalog.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.spiral.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ForceField.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.QuantTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.MLData.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.DbMolSupply.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.SaltRemover.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.NaiveBayes.CrossValidate.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesSupply.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.DSViewer.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdShapeHelpers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.TopNContainer.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.MolDrawing.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.PruneTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.MolSimilarity.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.cairoCanvas.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.DescriptorUtilities.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.rdInfoTheory.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.KNNRegressionModel.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.rdBase.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.Parser.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.fileutils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolStandardize.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Suppliers.MolSupplier.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.fmcs.fmcs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.CompositeRun.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FragmentMatcher.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.demo.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdfiltercatalog.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.CrossValidate.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.ActFuncs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.TorsionFingerprints.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolKey.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.ClusterVis.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Features.ShowFeats.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.Descriptors.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbInfo.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.cDataStructs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.Loader_sa.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.cactvs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.SimilarityMaps.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.AlignDepict.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.chemdraw.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.SubshapeBuilder.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdStructChecker.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Scaffolds.ScaffoldTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Scaffolds.MurckoScaffold.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.NaiveBayes.ClassificationModel.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.RDConfig.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.FeatMapPoint.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.Torsions.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Graphs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.PeriodicTable.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.ExcludedVolume.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.rdMolDraw2D.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.SLT.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmartsRemover.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.chemutils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.SimpleEnum.Enumerator.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdfragcatalog.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.entropy.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolTransforms.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatFinderCLI.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.BitEnsembleDb.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemicalFeatures.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.EnumerateHeterocycles.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.Pharmacophore.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.EState.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.SDFToCSV.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdChemReactions.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.SigTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbReport.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.Loader_orig.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fraggle.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.BuildFragmentCatalog.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.BuildSigTree.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.VectCollection.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.fmcs.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbModule.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolStandardize.rdMolStandardize.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Features.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Suppliers.DbMolSupplier.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.SLT.Risk.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MCS.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdForceFieldHelpers.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.MLUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.EmbedLib.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.FingerprintUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.BitClusterer.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdDepictor.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolHash.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FilterCatalog.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.CompoundDescriptors.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.AdjustComposite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.FeatMaps.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.BuilderUtils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesDupeFilter.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.comhack.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.TreeVis.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.ID3.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Descriptors.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.RDRandom.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.utils.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.ScreenComposite.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.IPythonConsole.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.six.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.Network.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmartsMolFilter.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DataManip.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.ForceField.rdForceField.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.Gobbi_Pharm2D.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdSLNParse.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/source/rdkit.DistanceGeometry.DistGeom.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/invalid.mol -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/solubility.train.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/solubility.test.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/MinimalFeatures.fdef -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/5ht3ligs.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/bzr.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/cdk2.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/AmideBond.rxn -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/input.mol -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/bzr.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/chiral.mol -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/actives_5ht3.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/data/actives_5ht3.sdf.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example3.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example9.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example15.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example12.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example11.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example10.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/CMakeLists.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/FindMyRDKit.cmake -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example6.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example14.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example2.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example7.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example1.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example13.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example8.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example4.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example5.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/C++Examples/example16.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/GettingStartedInPython.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/exts -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/exts/extapi.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Cookbook.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/rdk_bit1553_2.svg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_rf.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_mol1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_mol2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_8.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/mfp2_bit872.svg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/rdk_bit1553.svg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_molgrid.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_charges.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_7.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_crippen.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_5.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_molgrid_aligned.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_4.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_9.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_6.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_10.jpg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_0.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_11.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/indole1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_12.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_10.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book/Cartridge.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/An_overview_of_the_RDKit_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/index.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/RDKit_cookbook_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Supplementary_Text_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Makefile -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/The_RDKit_Book_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/conf.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_29.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_9.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_19.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_31.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_43.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_28.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_59.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_5.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_33.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_11.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_27.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_46.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_15.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_48.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_54.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_34.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_57.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_25.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_60.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_32.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_7.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_51.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_37.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_41.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_56.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_18.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_8.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_45.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_13.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_20.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_10.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_50.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_40.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_4.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_17.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_38.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_58.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_24.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_53.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_47.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_6.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_49.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_2.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_23.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_39.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_52.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_22.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_12.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_21.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_36.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_61.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_14.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_62.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_44.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_35.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_3.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_42.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_55.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_30.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_26.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_16.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Getting_Started_with_RDKit_in_Python_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/terminology_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Installation_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/introduction_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/The_RDKit_database_cartridge_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Book_jp/Backwards_incompatible_changes_jp.rst -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.jpg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/FragmentCatalogs.html -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.ai -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.jpg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.ai -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/SGroups.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/CodingStandards.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/EnhancedStereo.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_cis_base.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_expand.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_trans_base.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_or2_base.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_expand.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_expand.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_or_base.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_base.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_base.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_base.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_expand.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_base.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_Correlation.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_CorrMat.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_Correlation.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_CorrMat.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_Correlation.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_CorrMat.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField/ForceFieldTerms.new.odt -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField/UFF Parameters.ods -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/RD.css -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo_plain.inkscape.svg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/wiki -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/wiki/morganfp_atomenv1.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo.inkscape.svg -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo.ai -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo_plain.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Docs/Images/logo.lrg.png -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/fastcluster.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/clustered.tsv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/fp.tsv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/converted.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/sdf2smi.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/cdk2.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/cdk2.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/clustered_parse.tsv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/centroid.tsv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Glare -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Glare/glare.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/Glare/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/PBFRDKit.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/PBFRDKit.h -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/demo.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/Makefile -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/testData -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/testData/egfr.out -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/testData/egfr.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/PBF/pbf.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/CMakeLists.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/M_Kossner -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/BaseFeatures_DIP2_NoMicrospecies.fdef -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/Frames.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NP_Score -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NP_Score/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NP_Score/publicnp.model.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/NP_Score/npscorer.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/query.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/query_fragmentation.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/ChEMBL_11265_actives.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/fragmentation_tversky_out -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/final_fraggle_results.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/cxn_tversky.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/rdkit_tversky.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/fraggle.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/readme.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/fraggle/atomcontrib.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/IFG -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/IFG/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/IFG/ifg.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/ConformerParser.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/CMakeLists.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/test.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/ConformerParser.h -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/rdConformerParser.cpp -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/CMakeLists.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/testConformerParser.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/test_list.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/test_list.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/create_mmp_db.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/mol_transform.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/rfrag.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_trans_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smiles_mol_trans.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_maxheavy.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smirks.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_subs.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_sym_maxheavy.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mol_trans_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smirks_mol_trans.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_smi_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_subs_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_cansmirks.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_trans_smarts.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_trans.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_sym.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/simple.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_subs_smarts.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_transfroms.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_maxratio.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_default.csv -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_smi.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_subs_smart_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_trans_smarts_output.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_fragmented.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/cansmirk.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/test_list.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/test_rfrag.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/search_mmp_db.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/mmpa/indexing.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/identifyReactants.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/utils.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/__init__.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/UnitTestSAScore.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/data -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/data/zim.100.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/sascorer.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/SA_Score/fpscores.pkl.gz -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/AtomAtomSimilarity -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/AtomAtomSimilarity/AtomAtomPathSimilarity.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs/ChiralDescriptors.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/MolVS -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/MolVS/molvs_cli.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/AddLabels.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/DistancePredict.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/README.txt -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/CreateFps.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/DistancePlot.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/LEF/ClusterFps.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/pzc -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/pzc/p_con.html -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/pzc/readme.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Contrib/pzc/p_con.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/TestDbCLI.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/moe_like.dsc -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/SearchDb.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/pubchem.200.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/README -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.2.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.smi -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr_q1.mol -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.sdf -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/DbCLI/CreateDb.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Projects/__pycache__ -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/README.md -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/FeatFinderCLI.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/PythonFormat.py -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/test.sh -- Installing: /<>/debian/tmp/usr/share/RDKit/Scripts/create_deb_packages.sh -- Installing: /<>/debian/tmp/usr/share/RDKit/README -- Installing: /<>/debian/tmp/usr/share/RDKit/license.txt -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/CoordGen.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdCoordGen.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeneral.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeneral.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeneral.so -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/Exceptions.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/BadFileException.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/BoostStartInclude.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/BoostEndInclude.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/Dict.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/FileParseException.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/Invariant.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDAny.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDValue.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDValue-doublemagic.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDValue-taggedunion.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDLog.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDProps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDThreads.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/StreamOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/types.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/utils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/versions.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/RDConfig.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/LocaleSwitcher.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/Ranking.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hanoiSort.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/export.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/test.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash/extensions.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash/hash_fwd.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash/detail -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash/detail/hash_float.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash/detail/float_functions.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash/hash.hpp -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDBoost.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDBoost.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDBoost.so -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/Wrap.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/PySequenceHolder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/list_indexing_suite.hpp -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/python.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/boost_numpy.h -- Installing: /<>/debian/tmp/usr/include/rdkit/RDBoost/python_streambuf.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/rdBase.so -- Installing: /<>/debian/tmp/usr/lib/RDStreams/libRDKitRDStreams.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/RDStreams/libRDKitRDStreams.so.1 -- Installing: /<>/debian/tmp/usr/lib/RDStreams/libRDKitRDStreams.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitDataStructs.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDataStructs.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDataStructs.so -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/base64.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/BitOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/BitVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/BitVects.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/BitVectUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/DatastructsException.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/DatastructsStreamOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/DiscreteDistMat.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/DiscreteValueVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/ExplicitBitVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/SparseBitVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/SparseIntVect.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/FPBReader.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataStructs/MultiFPBReader.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/cDataStructs.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeometryLib.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeometryLib.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRDGeometryLib.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Grid3D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/GridUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/point.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Transform2D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Transform3D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Transform.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/UniformGrid3D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Geometry/Utils.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Geometry/rdGeometry.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/Matrix.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/SquareMatrix.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/SymmMatrix.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/Vector.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitAlignment.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitAlignment.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitAlignment.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/Alignment/AlignPoints.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Numerics/rdAlignment.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitEigenSolvers.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitEigenSolvers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitEigenSolvers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/EigenSolvers/PowerEigenSolver.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitOptimizer.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitOptimizer.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitOptimizer.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Numerics/Optimizer/BFGSOpt.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceField.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceField.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceField.so -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/Contrib.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/ForceField.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/AngleBend.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/BondStretch.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/Contribs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/DistanceConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/AngleConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/TorsionConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/PositionConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/Nonbonded.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/Params.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/Inversion.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/UFF/TorsionAngle.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/AngleBend.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/BondStretch.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/StretchBend.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/OopBend.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/TorsionAngle.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/Nonbonded.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/Contribs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/DistanceConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/AngleConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/TorsionConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/PositionConstraint.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ForceField/MMFF/Params.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ForceField/rdForceField.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeometry.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeometry.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeometry.so -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/BoundsMatrix.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/ChiralSet.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/ChiralViolationContrib.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/DistGeomUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/DistViolationContrib.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/FourthDimContrib.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DistGeom/TriangleSmooth.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DistanceGeometry/DistGeom.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitCatalogs.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitCatalogs.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitCatalogs.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Catalogs/CatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Catalogs/Catalog.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Catalogs/CatalogParams.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitGraphMol.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitGraphMol.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitGraphMol.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Atom.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/atomic_data.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/AtomIterators.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Bond.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/BondIterators.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Canon.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Chirality.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Conformer.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/details.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/GraphMol.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolPickler.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/PeriodicTable.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/QueryAtom.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/QueryBond.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/QueryOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RDKitBase.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RDKitQueries.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Resonance.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RingInfo.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Rings.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ROMol.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RWMol.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SanitException.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SubstanceGroup.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/StereoGroup.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MonomerInfo.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/new_canon.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolBundle.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitDepictor.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDepictor.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDepictor.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Depictor/DepictUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Depictor/EmbeddedFrag.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Depictor/RDDepictor.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdDepictor.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitSmilesParse.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSmilesParse.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSmilesParse.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/primes.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmartsWrite.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesParse.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesParseOps.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SmilesParse/SmilesWrite.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitFileParsers.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFileParsers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFileParsers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/FileParsers.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/FileParserUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolFileStereochem.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolSupplier.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/MolWriters.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/SequenceParsers.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FileParsers/SequenceWriters.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructMatch.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructMatch.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructMatch.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Substruct/SubstructMatch.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Substruct/SubstructUtils.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemReactions.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemReactions.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemReactions.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Reaction.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionParser.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionPickler.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionFingerprints.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/ReactionRunner.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/PreprocessRxn.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/SanitizeRxn.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/Enumerate.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/EnumerateBase.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/EnumerationPickler.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/EnumerationStrategyBase.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/CartesianProduct.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/RandomSample.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemReactions/RandomSampleAllBBs.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdChemReactions.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemTransforms.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemTransforms.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemTransforms.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemTransforms/ChemTransforms.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ChemTransforms/MolFragmenter.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubgraphs.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubgraphs.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubgraphs.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Subgraphs/Subgraphs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Subgraphs/SubgraphUtils.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitFilterCatalog.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFilterCatalog.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFilterCatalog.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalog.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatcherBase.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatchers.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdfiltercatalog.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitFragCatalog.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFragCatalog.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFragCatalog.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragCatParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FragCatalog/FragFPGenerator.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdfragcatalog.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitDescriptors.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDescriptors.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDescriptors.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Crippen.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Lipinski.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolDescriptors.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolSurf.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/ConnectivityDescriptors.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MQN.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/RegisterDescriptor.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Property.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/AUTOCORR2D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/Data3Ddescriptors.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/MolData3Ddescriptors.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Descriptors/USRDescriptor.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdMolDescriptors.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitFingerprints.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFingerprints.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFingerprints.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/AtomPairs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/Fingerprints.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MorganFingerprints.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MACCS.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/FingerprintGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/AtomPairGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/MorganGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/RDKitFPGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/TopologicalTorsionGenerator.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Fingerprints/FingerprintUtil.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdFingerprintGenerator.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitPartialCharges.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitPartialCharges.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitPartialCharges.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/PartialCharges/GasteigerCharges.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/PartialCharges/GasteigerParams.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdPartialCharges.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolTransforms.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolTransforms.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolTransforms.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolTransforms/MolTransforms.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdMolTransforms.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceFieldHelpers.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceFieldHelpers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitForceFieldHelpers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/Builder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/UFF.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/Builder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/MMFF.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdForceFieldHelpers.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeomHelpers.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeomHelpers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitDistGeomHelpers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/DistGeomHelpers/Embedder.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdDistGeom.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolAlign.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolAlign.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolAlign.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolAlign/AlignMolecules.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolAlign/O3AAlignMolecules.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdMolAlign.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolChemicalFeatures.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolChemicalFeatures.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolChemicalFeatures.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/FeatureParser.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeature.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdMolChemicalFeatures.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitShapeHelpers.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitShapeHelpers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitShapeHelpers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeEncoder.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeUtils.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdShapeHelpers.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolCatalog.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolCatalog.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolCatalog.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolCatalog/MolCatalog.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogParams.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdMolCatalog.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2D.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DSVG.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2Dwx.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DDetails.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolDraw2D.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolDraw2D.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolDraw2D.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/rdMolDraw2D.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitFMCS.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFMCS.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitFMCS.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/FMCS.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/Graph.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/Seed.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/SeedSet.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/MatchTable.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/RingMatchTableSet.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/SubstructureCache.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/SubstructMatchCustom.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/FMCS/MaximumCommonSubgraph.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdFMCS.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolHash.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolHash.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolHash.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolHash/MolHash.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdMolHash.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMMPA.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMMPA.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMMPA.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MMPA/MMPA.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdMMPA.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitStructChecker.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitStructChecker.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitStructChecker.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/StructChecker/StructChecker.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/StructChecker/Utilites.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/StructChecker/Pattern.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/StructChecker/Stereo.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/StructChecker/StripSmallFragments.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/StructChecker/ReCharge.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/StructChecker/Tautomer.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdStructChecker.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitReducedGraphs.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitReducedGraphs.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitReducedGraphs.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/ReducedGraphs/ReducedGraphs.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdReducedGraphs.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitTrajectory.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitTrajectory.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitTrajectory.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Trajectory/Snapshot.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/Trajectory/Trajectory.h -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructLibrary.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructLibrary.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSubstructLibrary.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrary.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdSubstructLibrary.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitRGroupDecomposition.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRGroupDecomposition.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitRGroupDecomposition.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecomp.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdRGroupDecomposition.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolInterchange.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolInterchange.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolInterchange.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolInterchange/MolInterchange.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolInterchange/details.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdMolInterchange.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitSLNParse.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSLNParse.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSLNParse.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SLNParse/SLNAttribs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SLNParse/SLNParse.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/SLNParse/SLNParseOps.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdSLNParse.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdchem.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdmolops.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdqueries.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdmolfiles.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdtrajectory.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolStandardize.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolStandardize.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitMolStandardize.so -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/MolStandardize.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Metal.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Normalize.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Validate.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Charge.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Tautomer.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/Fragment.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogUtils.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogEntry.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogParams.h -- Installing: /<>/debian/tmp/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogUtils.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/rdMolStandardize.so -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/AndQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/EqualityQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/GreaterEqualQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/GreaterQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/LessEqualQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/LessQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/OrQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/Query.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/QueryObjects.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/RangeQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/SetQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Query/XOrQuery.h -- Installing: /<>/debian/tmp/usr/include/rdkit/Features/Feature.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricFuncs.h -- Installing: /<>/debian/tmp/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricMatrixCalc.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/Metric/rdMetricMatrixCalc.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitSimDivPickers.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSimDivPickers.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitSimDivPickers.so -- Installing: /<>/debian/tmp/usr/include/rdkit/SimDivPickers/DistPicker.h -- Installing: /<>/debian/tmp/usr/include/rdkit/SimDivPickers/HierarchicalClusterPicker.h -- Installing: /<>/debian/tmp/usr/include/rdkit/SimDivPickers/MaxMinPicker.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters/rdSimDivPickers.so -- Installing: /<>/debian/tmp/usr/lib/libRDKithc.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKithc.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKithc.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Clustering.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitInfoTheory.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitInfoTheory.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitInfoTheory.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/rdInfoTheory.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/cQuantize.so -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemicalFeatures.so.1.2019.03.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemicalFeatures.so.1 -- Installing: /<>/debian/tmp/usr/lib/libRDKitChemicalFeatures.so -- Installing: /<>/debian/tmp/usr/include/rdkit/ChemicalFeatures/ChemicalFeature.h -- Installing: /<>/debian/tmp/usr/include/rdkit/ChemicalFeatures/FreeChemicalFeature.h -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/rdChemicalFeatures.so -- Installing: /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/RDPaths.py make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' ln -sf /usr/share/fonts/truetype/freefont/FreeSans.ttf /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/FreeSans.ttf dh_install -ppython3-rdkit /usr/lib/python3 rm -f -rf /<>/debian/tmp/usr/lib/python3/dist-packages/rdkit/docs/ rm -f -rf /<>/debian/tmp/usr/share/RDKit/Projects/__pycache__ dh_numpy3 dh_install --list-missing dh_install: Please use dh_missing --list-missing/--fail-missing instead dh_install: This feature will be removed in compat 12. dh_missing: usr/lib/RDStreams/libRDKitRDStreams.so exists in debian/tmp but is not installed to anywhere dh_missing: usr/lib/RDStreams/libRDKitRDStreams.so.1.2019.03.1 exists in debian/tmp but is not installed to anywhere dh_missing: usr/lib/RDStreams/libRDKitRDStreams.so.1 exists in debian/tmp but is not installed to anywhere dh_missing: usr/lib/cmake/rdkit/rdkit-config.cmake exists in debian/tmp but is not installed to anywhere dh_missing: usr/lib/cmake/rdkit/rdkit-targets-none.cmake exists in debian/tmp but is not installed to anywhere dh_missing: usr/lib/cmake/rdkit/rdkit-targets.cmake exists in debian/tmp but is not installed to anywhere dh_missing: usr/lib/cmake/rdkit/rdkit-config-version.cmake exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/README exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/license.txt exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/RD.css exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-RingSubstitution.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GenericCores.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-MutipleCores.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Notebooks/compounds.txt exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Notebooks/MolStandardize.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-example-lactam.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-DummyCores.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-StereoChemTest.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Notebooks/FingerprintGenerators.ipynb exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/Overview.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/index.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/GettingStartedInC++.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/Install.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/BackwardsIncompatibleChanges.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/Makefile exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/RDKit_Book.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/api-docs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/conf.py exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/GettingStartedInPython.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/Cookbook.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/Cartridge.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdChemicalFeatures.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.Tree.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdFreeSASA.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.QED.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Dbase.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.SimDivFilters.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.Pairs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.Sheridan.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Scoring.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Scaffolds.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.HierarchyVis.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SDSupply.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FastSDMolSupplier.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.Stats.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.KNNModel.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Descriptors3D.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.utils.listutils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.canvasbase.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.MLUtils.VoteImg.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolDescriptors.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.ModelPackage.Packager.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FunctionalGroups.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.BuildQuantTree.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.DbFpSupplier.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.NaiveBayes.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Resemblance.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.TemplateExpand.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.GraphDescriptors.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.MatOps.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Dbase.StorageUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.ModelPackage.PackageUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.FeatMapUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolInterchange.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdmolfiles.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.SimDivFilters.rdSimDivPickers.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.ModelPackage.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMMPA.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.Trainers.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.AnalyzeComposite.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.AtomTypes.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdqueries.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdmolops.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.Filter.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.inchi.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.DistFunctions.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.SimpleEnum.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdchem.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.PandasTools.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/modules.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.SimDivFilters.SimilarityPickers.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.Utils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.LazySignature.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbResultSet.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolKey.MolKey.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.GrowComposite.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.NetNode.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdPartialCharges.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.FeatMapParser.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdFingerprintGenerator.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.BitRank.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdCoordGen.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Avalon.pyAvalonTools.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdReducedGraphs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ShowMols.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Randomize.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.Output.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.SATIS.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdFMCS.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.Quantize.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Scoring.Scoring.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.RDLogger.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.PyMol.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Geometry.rdGeometry.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.testCombined.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesOutput.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolSurf.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.EnumerateStereoisomers.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Recap.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolCatalog.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Features.FeatDirUtilsRD.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.BulkTester.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.TreeUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.ClusterMols.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.Forest.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Clusters.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.Loader.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Avalon.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.EState_VSA.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Numerics.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdSubstructLibrary.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MACCSkeys.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataManip.Metric.rdMetricMatrixCalc.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.CrossValidate.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.TestRunner.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Crippen.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataManip.Metric.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.BRICS.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.SplitData.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.SimilarityScreener.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemicalForceFields.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.aggCanvas.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolAlign.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Suppliers.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.SubshapeAligner.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.Composite.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.mplCanvas.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ReducedGraphs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Numerics.rdAlignment.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.TemplateAlign.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbConnection.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.FindQuantBounds.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.Generate.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.randomtest.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.KNNClassificationModel.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.FingerprintMols.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.RDPaths.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolChemicalFeatures.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.ClusterUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Standardize.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.Transform.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdRGroupDecomposition.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.BayesComposite.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdDistGeom.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.qtCanvas.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.Matcher.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Lipinski.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.BitUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Murtagh.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.SigFactory.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.Supply.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.utils.chemdraw_qax.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.Transforms.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.files.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.DbPickleSupplier.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.DecTree.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.Fingerprinter.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.Utils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdinchi.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.DataUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.SubshapeObjects.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fraggle.FraggleSim.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.CrossValidate.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Clustering.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.LazyGenerator.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fragments.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.Butina.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.EnrichPlot.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdtrajectory.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.BitEnsemble.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.PropertyMol.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolKey.InchiInfo.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolCatalog.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.AllChem.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.Node.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.MoleculeDescriptors.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DistanceGeometry.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.BuildComposite.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Geometry.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FragmentCatalog.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.utils.spiral.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ForceField.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.QuantTree.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.MLData.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.DbMolSupply.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.SaltRemover.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.NaiveBayes.CrossValidate.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesSupply.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.DSViewer.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdShapeHelpers.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.TopNContainer.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.MolDrawing.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.PruneTree.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fingerprints.MolSimilarity.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.cairoCanvas.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.DescriptorUtilities.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.rdInfoTheory.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.KNNRegressionModel.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.rdBase.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.Parser.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.utils.fileutils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolStandardize.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Suppliers.MolSupplier.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.fmcs.fmcs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.CompositeRun.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FragmentMatcher.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.demo.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdfiltercatalog.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.CrossValidate.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.ActFuncs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.TorsionFingerprints.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolKey.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.ClusterVis.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Features.ShowFeats.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.Descriptors.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbInfo.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.cDataStructs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.Loader_sa.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Data.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.utils.cactvs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.SimilarityMaps.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.KNN.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.AlignDepict.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.utils.chemdraw.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.SubshapeBuilder.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdStructChecker.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Scaffolds.ScaffoldTree.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Scaffolds.MurckoScaffold.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.NaiveBayes.ClassificationModel.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.RDConfig.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.FeatMapPoint.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.AtomPairs.Torsions.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Graphs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.PeriodicTable.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.ExcludedVolume.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.rdMolDraw2D.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.SLT.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmartsRemover.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.utils.chemutils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.SimpleEnum.Enumerator.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdfragcatalog.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.entropy.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolTransforms.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatFinderCLI.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.BitEnsembleDb.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemicalFeatures.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.EnumerateHeterocycles.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.Pharmacophore.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.EState.EState.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.ChemUtils.SDFToCSV.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdChemReactions.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.SigTree.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbReport.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.Loader_orig.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Fraggle.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Cluster.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.BuildFragmentCatalog.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.BuildSigTree.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataStructs.VectCollection.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.fmcs.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Dbase.DbModule.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolStandardize.rdMolStandardize.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Features.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Suppliers.DbMolSupplier.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.SLT.Risk.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MCS.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdForceFieldHelpers.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.MLUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.EmbedLib.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.MolDb.FingerprintUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.InfoTheory.BitClusterer.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdDepictor.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdMolHash.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FilterCatalog.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Descriptors.CompoundDescriptors.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Composite.AdjustComposite.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.FeatMaps.FeatMaps.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Subshape.BuilderUtils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmilesDupeFilter.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.utils.comhack.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.TreeVis.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm3D.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.DecTree.ID3.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Descriptors.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.RDRandom.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.utils.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.ScreenComposite.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Draw.IPythonConsole.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.six.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ML.Neural.Network.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.VLib.NodeLib.SmartsMolFilter.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DataManip.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.ForceField.rdForceField.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.Pharm2D.Gobbi_Pharm2D.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.Chem.rdSLNParse.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/source/rdkit.DistanceGeometry.DistGeom.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/invalid.mol exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/solubility.train.sdf exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/solubility.test.sdf exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/MinimalFeatures.fdef exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/5ht3ligs.sdf exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/bzr.smi exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/cdk2.sdf exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/AmideBond.rxn exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/input.mol exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/bzr.sdf exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/chiral.mol exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/actives_5ht3.sdf exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/data/actives_5ht3.sdf.gz exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example3.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example9.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example15.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example12.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example11.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example10.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/CMakeLists.txt exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/FindMyRDKit.cmake exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example6.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example14.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example2.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example7.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example1.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example13.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example8.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example4.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example5.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/C++Examples/example16.cpp exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/exts/extapi.py exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/rdk_bit1553_2.svg exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/similarity_map_rf.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_2.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/cdk2_mol1.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/cdk2_mol2.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_3.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_8.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/similarity_map_fp1.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/mfp2_bit872.svg exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/rdk_bit1553.svg exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/cdk2_molgrid.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/similarity_map_charges.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_1.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_7.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/similarity_map_fp3.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/similarity_map_crippen.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_5.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/similarity_map_fp2.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/cdk2_molgrid_aligned.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_4.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_9.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_6.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_10.jpg exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_0.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_11.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/indole1.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_12.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book/images/picture_10.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/An_overview_of_the_RDKit_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/index.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/RDKit_cookbook_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/Supplementary_Text_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/Makefile exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/The_RDKit_Book_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/conf.py exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/Getting_Started_with_RDKit_in_Python_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/terminology_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/Installation_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/introduction_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/The_RDKit_database_cartridge_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/Backwards_incompatible_changes_jp.rst exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_29.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_9.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_19.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_31.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_43.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_28.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_59.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_5.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_33.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_11.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_27.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_46.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_15.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_48.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_54.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_34.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_57.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_25.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_60.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_32.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_7.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_51.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_37.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_41.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_56.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_18.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_8.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_45.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_13.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_20.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_10.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_50.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_40.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_4.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_17.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_38.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_1.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_58.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_24.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_53.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_47.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_6.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_49.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_2.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_23.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_39.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_52.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_22.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_12.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_21.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_36.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_61.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_14.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_62.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_44.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_35.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_3.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_42.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_55.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_30.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_26.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_16.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/SGroups.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/CodingStandards.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/EnhancedStereo.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.jpg exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/Chem/FragmentCatalogs.html exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.ai exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.jpg exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.ai exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_cis_base.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_trans_base.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_or2_base.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_or_base.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_base.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_base.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_base.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_expand.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_base.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/README exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_Correlation.csv exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_CorrMat.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_Correlation.csv exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_CorrMat.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_Correlation.csv exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_CorrMat.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Analysis/ForceField/ForceFieldTerms.new.odt exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Analysis/ForceField/UFF Parameters.ods exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Images/logo_plain.inkscape.svg exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Images/logo.inkscape.svg exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Images/logo.ai exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Images/logo_plain.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Images/logo.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Images/logo.lrg.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Docs/Images/wiki/morganfp_atomenv1.png exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Scripts/README.md exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Scripts/FeatFinderCLI.py exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Scripts/PythonFormat.py exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Scripts/test.sh exists in debian/tmp but is not installed to anywhere dh_missing: usr/share/RDKit/Scripts/create_deb_packages.sh exists in debian/tmp but is not installed to anywhere The following debhelper tools have reported what they installed (with files per package) * dh_install: librdkit-dev (47), librdkit1 (92), postgresql-11-rdkit (0), python3-rdkit (1), rdkit-data (3), rdkit-doc (0) If the missing files are installed by another tool, please file a bug against it. When filing the report, if the tool is not part of debhelper itself, please reference the "Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+). (in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.gz) Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built For a short-term work-around: Add the files to debian/not-installed mkdir -p /<>/debian/rdkit-doc/usr/share/doc/rdkit/ cp /<>/Docs/Book/_build/latex/RDKit.pdf /<>/debian/rdkit-doc/usr/share/doc/rdkit/ cp -a /<>/Docs/Book/_build/html /<>/debian/rdkit-doc/usr/share/doc/rdkit/ pg_buildext install /<>/Code/PgSQL/rdkit build-%v postgresql-%v-rdkit ### install 11 ### make[2]: Entering directory '/<>/build-11' /bin/mkdir -p '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib' /bin/mkdir -p '/<>/debian/postgresql-11-rdkit/usr/share/postgresql/11/extension' /bin/mkdir -p '/<>/debian/postgresql-11-rdkit/usr/share/postgresql/11/extension' /usr/bin/install -c -m 755 rdkit.so '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/rdkit.so' /usr/bin/install -c -m 644 /<>/Code/PgSQL/rdkit/rdkit.control '/<>/debian/postgresql-11-rdkit/usr/share/postgresql/11/extension/' /usr/bin/install -c -m 644 rdkit--3.7.sql '/<>/debian/postgresql-11-rdkit/usr/share/postgresql/11/extension/' /bin/mkdir -p '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode/rdkit' /bin/mkdir -p '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/ /usr/bin/install -c -m 644 rdkit_io.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 mol_op.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 bfp_op.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 sfp_op.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 rxn_op.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 rdkit_gist.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 bfp_gist.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 bfp_gin.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 low_gist.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 guc.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 cache.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 adapter.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ /usr/bin/install -c -m 644 bitstring.bc '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode'/rdkit/./ cd '/<>/debian/postgresql-11-rdkit/usr/lib/postgresql/11/lib/bitcode' && /usr/lib/llvm-7/bin/llvm-lto -thinlto -thinlto-action=thinlink -o rdkit.index.bc rdkit/rdkit_io.bc rdkit/mol_op.bc rdkit/bfp_op.bc rdkit/sfp_op.bc rdkit/rxn_op.bc rdkit/rdkit_gist.bc rdkit/bfp_gist.bc rdkit/bfp_gin.bc rdkit/low_gist.bc rdkit/guc.bc rdkit/cache.bc rdkit/adapter.bc rdkit/bitstring.bc make[2]: Leaving directory '/<>/build-11' ln -sf /usr/share/javascript/jquery/jquery.js /<>/debian/rdkit-doc/usr/share/doc/rdkit//html/cppapi/jquery.js ln -sf /usr/share/javascript/jquery/jquery.js /<>/debian/rdkit-doc/usr/share/doc/rdkit//html/_static/jquery.js ln -sf /usr/share/javascript/underscore/underscore.js /<>/debian/rdkit-doc/usr/share/doc/rdkit//html/_static/underscore.js make[1]: Leaving directory '/<>' dh_installdocs -a -O--buildsystem=cmake -O--parallel debian/rules override_dh_installchangelogs make[1]: Entering directory '/<>' dh_installchangelogs ReleaseNotes.md make[1]: Leaving directory '/<>' debian/rules override_dh_python3 make[1]: Entering directory '/<>' dh_python3 -ppython3-rdkit I: dh_python3 fs:343: renaming rdBase.so to rdBase.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdChemReactions.so to rdChemReactions.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdChemicalFeatures.so to rdChemicalFeatures.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdCoordGen.so to rdCoordGen.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdDepictor.so to rdDepictor.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdDistGeom.so to rdDistGeom.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdFMCS.so to rdFMCS.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdFingerprintGenerator.so to rdFingerprintGenerator.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdForceFieldHelpers.so to rdForceFieldHelpers.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMMPA.so to rdMMPA.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMolAlign.so to rdMolAlign.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMolCatalog.so to rdMolCatalog.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMolChemicalFeatures.so to rdMolChemicalFeatures.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMolDescriptors.so to rdMolDescriptors.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMolHash.so to rdMolHash.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMolInterchange.so to rdMolInterchange.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMolTransforms.so to rdMolTransforms.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdPartialCharges.so to rdPartialCharges.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdRGroupDecomposition.so to rdRGroupDecomposition.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdReducedGraphs.so to rdReducedGraphs.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdSLNParse.so to rdSLNParse.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdShapeHelpers.so to rdShapeHelpers.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdStructChecker.so to rdStructChecker.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdSubstructLibrary.so to rdSubstructLibrary.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdchem.so to rdchem.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdfiltercatalog.so to rdfiltercatalog.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdfragcatalog.so to rdfragcatalog.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdmolfiles.so to rdmolfiles.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdmolops.so to rdmolops.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdqueries.so to rdqueries.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdtrajectory.so to rdtrajectory.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMolStandardize.so to rdMolStandardize.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMolDraw2D.so to rdMolDraw2D.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdSimDivPickers.so to rdSimDivPickers.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdMetricMatrixCalc.so to rdMetricMatrixCalc.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming DistGeom.so to DistGeom.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdGeometry.so to rdGeometry.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdAlignment.so to rdAlignment.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming cQuantize.so to cQuantize.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdInfoTheory.so to rdInfoTheory.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming Clustering.so to Clustering.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming rdForceField.so to rdForceField.cpython-37m-arm-linux-gnueabihf.so I: dh_python3 fs:343: renaming cDataStructs.so to cDataStructs.cpython-37m-arm-linux-gnueabihf.so dh_numpy3 -ppython3-rdkit make[1]: Leaving directory '/<>' dh_installinit -a -O--buildsystem=cmake -O--parallel dh_lintian -a -O--buildsystem=cmake -O--parallel dh_perl -a -O--buildsystem=cmake -O--parallel dh_link -a -O--buildsystem=cmake -O--parallel dh_strip_nondeterminism -a -O--buildsystem=cmake -O--parallel dh_compress -a -O--buildsystem=cmake -O--parallel dh_fixperms -a -O--buildsystem=cmake -O--parallel dh_missing -a -O--buildsystem=cmake -O--parallel dh_strip -a -O--buildsystem=cmake -O--parallel dh_makeshlibs -a -O--buildsystem=cmake -O--parallel dh_shlibdeps -a -O--buildsystem=cmake -O--parallel dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitReducedGraphs.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitStructChecker.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolStandardize.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolHash.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSLNParse.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolCatalog.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDistGeometry.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitPartialCharges.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitForceFieldHelpers.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSubstructMatch.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDepictor.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDataStructs.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitCatalogs.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolDraw2D.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSubstructLibrary.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFingerprints.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitInfoTheory.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitRDGeneral.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolInterchange.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolTransforms.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFMCS.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitChemReactions.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSmilesParse.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitChemTransforms.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFragCatalog.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSubgraphs.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitEigenSolvers.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitShapeHelpers.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitSimDivPickers.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitChemicalFeatures.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDistGeomHelpers.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitOptimizer.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitGraphMol.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitDescriptors.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFileParsers.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitFilterCatalog.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMMPA.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolChemicalFeatures.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitRDBoost.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitTrajectory.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitRDGeometryLib.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitAlignment.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitMolAlign.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitForceField.so.1.2019.03.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librdkit1/usr/lib/libRDKitRGroupDecomposition.so.1.2019.03.1 found in none of the libraries dh_installdeb -a -O--buildsystem=cmake -O--parallel dh_gencontrol -a -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: package postgresql-11-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 librdkit-dev: 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 postgresql-11-rdkit: substitution variable ${python3:Depends} unused, but is defined dh_md5sums -a -O--buildsystem=cmake -O--parallel dh_builddeb -a -O--buildsystem=cmake -O--parallel INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 pkgstriptranslations: processing librdkit-dev (in debian/librdkit-dev); do_strip: , oemstrip: pkgstriptranslations: processing python3-rdkit (in debian/python3-rdkit); do_strip: , oemstrip: pkgstriptranslations: processing librdkit1 (in debian/librdkit1); do_strip: , oemstrip: pkgstriptranslations: processing postgresql-11-rdkit-dbgsym (in debian/.debhelper/postgresql-11-rdkit/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/librdkit-dev/DEBIAN/control, package librdkit-dev, directory debian/librdkit-dev .. removing usr/share/doc/librdkit-dev/changelog.gz INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... pkgstripfiles: processing control file: debian/librdkit1/DEBIAN/control, package librdkit1, directory debian/librdkit1 .. removing usr/share/doc/librdkit1/changelog.gz INFO: pkgstripfiles: waiting for lock (librdkit1) ... INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... INFO: pkgstripfiles: waiting for lock (librdkit1) ... INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... INFO: pkgstripfiles: waiting for lock (librdkit1) ... INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... INFO: pkgstripfiles: waiting for lock (librdkit1) ... INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... INFO: pkgstripfiles: waiting for lock (librdkit1) ... pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/python3-rdkit/DEBIAN/control, package python3-rdkit, directory debian/python3-rdkit .. removing usr/share/doc/python3-rdkit/changelog.gz pkgstripfiles: processing control file: debian/.debhelper/postgresql-11-rdkit/dbgsym-root/DEBIAN/control, package postgresql-11-rdkit-dbgsym, directory debian/.debhelper/postgresql-11-rdkit/dbgsym-root dpkg-deb: building package 'postgresql-11-rdkit-dbgsym' in 'debian/.debhelper/scratch-space/build-postgresql-11-rdkit/postgresql-11-rdkit-dbgsym_201903.1-2ubuntu1_armhf.deb'. Searching for duplicated docs in dependency librdkit1... symlinking changelog.Debian.gz in python3-rdkit to file in librdkit1 INFO: pkgstripfiles: waiting for lock (librdkit-dev) ... pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-rdkit ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-rdkit' in '../python3-rdkit_201903.1-2ubuntu1_armhf.deb'. pkgstripfiles: Truncating usr/share/doc/librdkit1/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package librdkit1 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'librdkit1' in '../librdkit1_201903.1-2ubuntu1_armhf.deb'. Renaming postgresql-11-rdkit-dbgsym_201903.1-2ubuntu1_armhf.deb to postgresql-11-rdkit-dbgsym_201903.1-2ubuntu1_armhf.ddeb Searching for duplicated docs in dependency librdkit1... symlinking changelog.Debian.gz in librdkit-dev to file in librdkit1 pkgstripfiles: Running PNG optimization (using 4 cpus) for package librdkit-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'librdkit-dev' in '../librdkit-dev_201903.1-2ubuntu1_armhf.deb'. INFO: pkgstriptranslations version 144 pkgstriptranslations: processing postgresql-11-rdkit (in debian/postgresql-11-rdkit); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/postgresql-11-rdkit/DEBIAN/control, package postgresql-11-rdkit, directory debian/postgresql-11-rdkit .. removing usr/share/doc/postgresql-11-rdkit/changelog.gz Searching for duplicated docs in dependency librdkit1... symlinking changelog.Debian.gz in postgresql-11-rdkit to file in librdkit1 pkgstripfiles: Running PNG optimization (using 4 cpus) for package postgresql-11-rdkit ... pkgstripfiles: No PNG files. dpkg-deb: building package 'postgresql-11-rdkit' in '../postgresql-11-rdkit_201903.1-2ubuntu1_armhf.deb'. INFO: pkgstriptranslations version 144 pkgstriptranslations: processing librdkit1-dbgsym (in debian/.debhelper/librdkit1/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/.debhelper/librdkit1/dbgsym-root/DEBIAN/control, package librdkit1-dbgsym, directory debian/.debhelper/librdkit1/dbgsym-root dpkg-deb: building package 'librdkit1-dbgsym' in 'debian/.debhelper/scratch-space/build-librdkit1/librdkit1-dbgsym_201903.1-2ubuntu1_armhf.deb'. INFO: pkgstriptranslations version 144 pkgstriptranslations: processing python3-rdkit-dbgsym (in debian/.debhelper/python3-rdkit/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/.debhelper/python3-rdkit/dbgsym-root/DEBIAN/control, package python3-rdkit-dbgsym, directory debian/.debhelper/python3-rdkit/dbgsym-root dpkg-deb: building package 'python3-rdkit-dbgsym' in 'debian/.debhelper/scratch-space/build-python3-rdkit/python3-rdkit-dbgsym_201903.1-2ubuntu1_armhf.deb'. Renaming librdkit1-dbgsym_201903.1-2ubuntu1_armhf.deb to librdkit1-dbgsym_201903.1-2ubuntu1_armhf.ddeb Renaming python3-rdkit-dbgsym_201903.1-2ubuntu1_armhf.deb to python3-rdkit-dbgsym_201903.1-2ubuntu1_armhf.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../rdkit_201903.1-2ubuntu1_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20191209-2135 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ rdkit_201903.1-2ubuntu1_armhf.changes: -------------------------------------- Format: 1.8 Date: Mon, 09 Dec 2019 13:41:16 +0000 Source: rdkit Binary: librdkit-dev librdkit1 postgresql-11-rdkit python3-rdkit Architecture: armhf Version: 201903.1-2ubuntu1 Distribution: focal Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Dimitri John Ledkov Description: librdkit-dev - Collection of cheminformatics and machine-learning software (deve librdkit1 - Collection of cheminformatics and machine-learning software (shar postgresql-11-rdkit - Cheminformatics and machine-learning software (PostgreSQL Cartrid python3-rdkit - Collection of cheminformatics and machine-learning software Changes: rdkit (201903.1-2ubuntu1) focal; urgency=medium . * Make autopkgtest depend on the postgresql server version this extension is built for. Checksums-Sha1: 1224bb8298ba0821cdcd0642674ead4179e71cad 240916 librdkit-dev_201903.1-2ubuntu1_armhf.deb c63c983bc02724f98e671cfe9703d526ab71c710 77456008 librdkit1-dbgsym_201903.1-2ubuntu1_armhf.ddeb 630211e8da52793deef99e2000293129e6b7c990 2534696 librdkit1_201903.1-2ubuntu1_armhf.deb 03809c018911bd179a4e24092638330a4d275639 1134996 postgresql-11-rdkit-dbgsym_201903.1-2ubuntu1_armhf.ddeb e5c6907072f599c140ff189e8b3690a2392f56ec 360504 postgresql-11-rdkit_201903.1-2ubuntu1_armhf.deb d339c782004aa1b279d679c36cd7ebff1935d51d 53195168 python3-rdkit-dbgsym_201903.1-2ubuntu1_armhf.ddeb ff715a9865a6b25a7ca676f83de767718c8ce64d 2597268 python3-rdkit_201903.1-2ubuntu1_armhf.deb d56585c8402f40aef88b517a54fbe980f48d5be7 15902 rdkit_201903.1-2ubuntu1_armhf.buildinfo Checksums-Sha256: f66a1df88e9ecd8300034e290e22929298676c506627994dab6f865d7189c670 240916 librdkit-dev_201903.1-2ubuntu1_armhf.deb 56b748624fb1462cd973677a90f742dd4b6b5fc223e89b6843c06d2af755ed74 77456008 librdkit1-dbgsym_201903.1-2ubuntu1_armhf.ddeb 443a76ae18e9236a3e88287cce7f747cfa3c380c111f390ed94469759efe2c37 2534696 librdkit1_201903.1-2ubuntu1_armhf.deb 7608760babd5173c44931140c16dee349dcf0baa63582cc31464c2adce5c1a5a 1134996 postgresql-11-rdkit-dbgsym_201903.1-2ubuntu1_armhf.ddeb cf272d2d76170cc17d6d19b7ea4b01c5a9b1b7640e30705d7ca782c7525a4109 360504 postgresql-11-rdkit_201903.1-2ubuntu1_armhf.deb 1cdb15cd4d33f97a7e7eee69763312c99f4d0a50328457ec4bd6eadd28cacc6b 53195168 python3-rdkit-dbgsym_201903.1-2ubuntu1_armhf.ddeb 7e69f7035db49c9de939500f8eb8f6287e11d511f398f3ab6b821c9ccedf9ce5 2597268 python3-rdkit_201903.1-2ubuntu1_armhf.deb 9a3e0e50f93db982595d5d3981a40cbda24210c13587173e11f039c57fb1443e 15902 rdkit_201903.1-2ubuntu1_armhf.buildinfo Files: 163f8aaccf7b04e6b50eb93e1c7e66a7 240916 libdevel optional librdkit-dev_201903.1-2ubuntu1_armhf.deb 9c3b4368f74a47656999912ea423248f 77456008 debug optional librdkit1-dbgsym_201903.1-2ubuntu1_armhf.ddeb 47fceb9609770777c8ed627a579c0e67 2534696 libs optional librdkit1_201903.1-2ubuntu1_armhf.deb 3b5c89c307ed6c26b9e9fbacac26c5e4 1134996 debug optional postgresql-11-rdkit-dbgsym_201903.1-2ubuntu1_armhf.ddeb 29773eeb7e10b0e89cadb2b1b2a2498c 360504 database optional postgresql-11-rdkit_201903.1-2ubuntu1_armhf.deb 059020fb285557a41e073080e56fdf90 53195168 debug optional python3-rdkit-dbgsym_201903.1-2ubuntu1_armhf.ddeb fbf46050df16647ff1bfbc521de89a89 2597268 python optional python3-rdkit_201903.1-2ubuntu1_armhf.deb d54dcc26031e0139c1eec740f3020185 15902 science optional rdkit_201903.1-2ubuntu1_armhf.buildinfo Original-Maintainer: Debichem Team +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ librdkit-dev_201903.1-2ubuntu1_armhf.deb ---------------------------------------- new debian package, version 2.0. size 240916 bytes: control archive=8852 bytes. 1595 bytes, 38 lines control 24703 bytes, 295 lines md5sums Package: librdkit-dev Source: rdkit Version: 201903.1-2ubuntu1 Architecture: armhf Maintainer: Ubuntu Developers Installed-Size: 1842 Depends: librdkit1 (= 201903.1-2ubuntu1) Section: libdevel Priority: optional Homepage: http://www.rdkit.org Description: Collection of cheminformatics and machine-learning software (development files) RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. . This package contains the header files. Original-Maintainer: Debichem Team drwxr-xr-x root/root 0 2019-12-09 13:41 ./ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/Catalogs/ -rw-r--r-- root/root 16645 2019-04-08 18:44 ./usr/include/rdkit/Catalogs/Catalog.h -rw-r--r-- root/root 1361 2019-04-08 18:44 ./usr/include/rdkit/Catalogs/CatalogEntry.h -rw-r--r-- root/root 1221 2019-04-08 18:44 ./usr/include/rdkit/Catalogs/CatalogParams.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/ChemicalFeatures/ -rw-r--r-- root/root 1021 2019-04-08 18:44 ./usr/include/rdkit/ChemicalFeatures/ChemicalFeature.h -rw-r--r-- root/root 2814 2019-04-08 18:44 ./usr/include/rdkit/ChemicalFeatures/FreeChemicalFeature.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/DataManip/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/DataManip/MetricMatrixCalc/ -rw-r--r-- root/root 1841 2019-04-08 18:44 ./usr/include/rdkit/DataManip/MetricMatrixCalc/MetricFuncs.h -rw-r--r-- root/root 3506 2019-04-08 18:44 ./usr/include/rdkit/DataManip/MetricMatrixCalc/MetricMatrixCalc.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/DataStructs/ -rw-r--r-- root/root 10600 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/BitOps.h -rw-r--r-- root/root 2509 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/BitVect.h -rw-r--r-- root/root 1115 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/BitVectUtils.h -rw-r--r-- root/root 584 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/BitVects.h -rw-r--r-- root/root 841 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/DatastructsException.h -rw-r--r-- root/root 2718 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/DatastructsStreamOps.h -rw-r--r-- root/root 844 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/DiscreteDistMat.h -rw-r--r-- root/root 4392 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/DiscreteValueVect.h -rw-r--r-- root/root 3242 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/ExplicitBitVect.h -rw-r--r-- root/root 9571 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/FPBReader.h -rw-r--r-- root/root 7634 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/MultiFPBReader.h -rw-r--r-- root/root 3013 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/SparseBitVect.h -rw-r--r-- root/root 16335 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/SparseIntVect.h -rw-r--r-- root/root 1252 2019-04-08 18:44 ./usr/include/rdkit/DataStructs/base64.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/DistGeom/ -rw-r--r-- root/root 3429 2019-04-08 18:44 ./usr/include/rdkit/DistGeom/BoundsMatrix.h -rw-r--r-- root/root 1630 2019-04-08 18:44 ./usr/include/rdkit/DistGeom/ChiralSet.h -rw-r--r-- root/root 3549 2019-04-08 18:44 ./usr/include/rdkit/DistGeom/ChiralViolationContrib.h -rw-r--r-- root/root 6528 2019-04-08 18:44 ./usr/include/rdkit/DistGeom/DistGeomUtils.h -rw-r--r-- root/root 1825 2019-04-08 18:44 ./usr/include/rdkit/DistGeom/DistViolationContrib.h -rw-r--r-- root/root 1979 2019-04-08 18:44 ./usr/include/rdkit/DistGeom/FourthDimContrib.h -rw-r--r-- root/root 1183 2019-04-08 18:44 ./usr/include/rdkit/DistGeom/TriangleSmooth.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/Features/ -rw-r--r-- root/root 2888 2019-04-08 18:44 ./usr/include/rdkit/Features/Feature.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/ForceField/ -rw-r--r-- root/root 1100 2019-04-08 18:44 ./usr/include/rdkit/ForceField/Contrib.h -rw-r--r-- root/root 7723 2019-04-08 18:44 ./usr/include/rdkit/ForceField/ForceField.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/ForceField/MMFF/ -rw-r--r-- root/root 2557 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/AngleBend.h -rw-r--r-- root/root 2119 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/AngleConstraint.h -rw-r--r-- root/root 2126 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/BondStretch.h -rw-r--r-- root/root 663 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/Contribs.h -rw-r--r-- root/root 2025 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/DistanceConstraint.h -rw-r--r-- root/root 3707 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/Nonbonded.h -rw-r--r-- root/root 2163 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/OopBend.h -rw-r--r-- root/root 56150 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/Params.h -rw-r--r-- root/root 1649 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/PositionConstraint.h -rw-r--r-- root/root 2321 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/StretchBend.h -rw-r--r-- root/root 2753 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/TorsionAngle.h -rw-r--r-- root/root 2404 2019-04-08 18:44 ./usr/include/rdkit/ForceField/MMFF/TorsionConstraint.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/ForceField/UFF/ -rw-r--r-- root/root 3433 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/AngleBend.h -rw-r--r-- root/root 2091 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/AngleConstraint.h -rw-r--r-- root/root 2511 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/BondStretch.h -rw-r--r-- root/root 599 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/Contribs.h -rw-r--r-- root/root 2022 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/DistanceConstraint.h -rw-r--r-- root/root 2583 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/Inversion.h -rw-r--r-- root/root 2852 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/Nonbonded.h -rw-r--r-- root/root 4501 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/Params.h -rw-r--r-- root/root 1646 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/PositionConstraint.h -rw-r--r-- root/root 4255 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/TorsionAngle.h -rw-r--r-- root/root 2377 2019-04-08 18:44 ./usr/include/rdkit/ForceField/UFF/TorsionConstraint.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/Geometry/ -rw-r--r-- root/root 1538 2019-04-08 18:44 ./usr/include/rdkit/Geometry/Grid3D.h -rw-r--r-- root/root 1898 2019-04-08 18:44 ./usr/include/rdkit/Geometry/GridUtils.h -rw-r--r-- root/root 449 2019-04-08 18:44 ./usr/include/rdkit/Geometry/Transform.h -rw-r--r-- root/root 2584 2019-04-08 18:44 ./usr/include/rdkit/Geometry/Transform2D.h -rw-r--r-- root/root 2770 2019-04-08 18:44 ./usr/include/rdkit/Geometry/Transform3D.h -rw-r--r-- root/root 8230 2019-04-08 18:44 ./usr/include/rdkit/Geometry/UniformGrid3D.h -rw-r--r-- root/root 3313 2019-04-08 18:44 ./usr/include/rdkit/Geometry/Utils.h -rw-r--r-- root/root 13897 2019-04-08 18:44 ./usr/include/rdkit/Geometry/point.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/ -rw-r--r-- root/root 14039 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Atom.h -rw-r--r-- root/root 5607 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/AtomIterators.h -rw-r--r-- root/root 10399 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Bond.h -rw-r--r-- root/root 2342 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/BondIterators.h -rw-r--r-- root/root 3889 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Canon.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/ChemReactions/ -rw-r--r-- root/root 4690 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/CartesianProduct.h -rw-r--r-- root/root 6454 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/Enumerate.h -rw-r--r-- root/root 6978 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/EnumerateBase.h -rw-r--r-- root/root 2678 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/EnumerationPickler.h -rw-r--r-- root/root 8135 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/EnumerationStrategyBase.h -rw-r--r-- root/root 3126 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/PreprocessRxn.h -rw-r--r-- root/root 5421 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/RandomSample.h -rw-r--r-- root/root 6149 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/RandomSampleAllBBs.h -rw-r--r-- root/root 18649 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/Reaction.h -rw-r--r-- root/root 5927 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionFingerprints.h -rw-r--r-- root/root 5219 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionParser.h -rw-r--r-- root/root 4261 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionPickler.h -rw-r--r-- root/root 4768 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionRunner.h -rw-r--r-- root/root 3376 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/ReactionUtils.h -rw-r--r-- root/root 6528 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemReactions/SanitizeRxn.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/ChemTransforms/ -rw-r--r-- root/root 11502 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemTransforms/ChemTransforms.h -rw-r--r-- root/root 4185 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ChemTransforms/MolFragmenter.h -rw-r--r-- root/root 911 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Chirality.h -rw-r--r-- root/root 4491 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Conformer.h -rw-r--r-- root/root 5899 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/CoordGen.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/Depictor/ -rw-r--r-- root/root 12009 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Depictor/DepictUtils.h -rw-r--r-- root/root 19091 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Depictor/EmbeddedFrag.h -rw-r--r-- root/root 7705 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Depictor/RDDepictor.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/Descriptors/ -rw-r--r-- root/root 2032 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/AUTOCORR2D.h -rw-r--r-- root/root 7240 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/ConnectivityDescriptors.h -rw-r--r-- root/root 4586 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/Crippen.h -rw-r--r-- root/root 2116 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/Data3Ddescriptors.h -rw-r--r-- root/root 6893 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/Lipinski.h -rw-r--r-- root/root 1081 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/MQN.h -rw-r--r-- root/root 2812 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/MolData3Ddescriptors.h -rw-r--r-- root/root 2187 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/MolDescriptors.h -rw-r--r-- root/root 4769 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/MolSurf.h -rw-r--r-- root/root 4796 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/Property.h -rw-r--r-- root/root 3486 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/RegisterDescriptor.h -rw-r--r-- root/root 4959 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Descriptors/USRDescriptor.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/DistGeomHelpers/ -rw-r--r-- root/root 2953 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h -rw-r--r-- root/root 19887 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/DistGeomHelpers/Embedder.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/FMCS/ -rw-r--r-- root/root 6312 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FMCS/FMCS.h -rw-r--r-- root/root 1181 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FMCS/Graph.h -rw-r--r-- root/root 1427 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FMCS/MatchTable.h -rw-r--r-- root/root 3251 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FMCS/MaximumCommonSubgraph.h -rw-r--r-- root/root 8496 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FMCS/RingMatchTableSet.h -rw-r--r-- root/root 5261 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FMCS/Seed.h -rw-r--r-- root/root 1652 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FMCS/SeedSet.h -rw-r--r-- root/root 1470 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FMCS/SubstructMatchCustom.h -rw-r--r-- root/root 5734 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FMCS/SubstructureCache.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/FileParsers/ -rw-r--r-- root/root 8443 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FileParsers/FileParserUtils.h -rw-r--r-- root/root 15056 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FileParsers/FileParsers.h -rw-r--r-- root/root 1507 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FileParsers/MolFileStereochem.h -rw-r--r-- root/root 15199 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FileParsers/MolSupplier.h -rw-r--r-- root/root 10801 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FileParsers/MolWriters.h -rw-r--r-- root/root 3476 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FileParsers/SequenceParsers.h -rw-r--r-- root/root 1340 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FileParsers/SequenceWriters.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/FilterCatalog/ -rw-r--r-- root/root 8506 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalog.h -rw-r--r-- root/root 8954 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalogEntry.h -rw-r--r-- root/root 5361 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterMatcherBase.h -rw-r--r-- root/root 19791 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FilterCatalog/FilterMatchers.h -rw-r--r-- root/root 2479 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/Fingerprints/ -rw-r--r-- root/root 6725 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/AtomPairGenerator.h -rw-r--r-- root/root 12213 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/AtomPairs.h -rw-r--r-- root/root 12610 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/FingerprintGenerator.h -rw-r--r-- root/root 5542 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/FingerprintUtil.h -rw-r--r-- root/root 6494 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/Fingerprints.h -rw-r--r-- root/root 717 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/MACCS.h -rw-r--r-- root/root 9085 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/MorganFingerprints.h -rw-r--r-- root/root 8325 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/MorganGenerator.h -rw-r--r-- root/root 5396 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/RDKitFPGenerator.h -rw-r--r-- root/root 4578 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Fingerprints/TopologicalTorsionGenerator.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/ -rw-r--r-- root/root 2266 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h -rw-r--r-- root/root 1166 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/ -rw-r--r-- root/root 9480 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h -rw-r--r-- root/root 5328 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/Builder.h -rw-r--r-- root/root 5844 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/MMFF.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/ -rw-r--r-- root/root 2265 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h -rw-r--r-- root/root 4838 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/Builder.h -rw-r--r-- root/root 4848 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/UFF.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/FragCatalog/ -rw-r--r-- root/root 797 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FragCatalog/FragCatGenerator.h -rw-r--r-- root/root 3024 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FragCatalog/FragCatParams.h -rw-r--r-- root/root 3509 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FragCatalog/FragCatalogEntry.h -rw-r--r-- root/root 2492 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FragCatalog/FragCatalogUtils.h -rw-r--r-- root/root 999 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/FragCatalog/FragFPGenerator.h -rw-r--r-- root/root 479 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/GraphMol.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/MMPA/ -rw-r--r-- root/root 3443 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MMPA/MMPA.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/MolAlign/ -rw-r--r-- root/root 6905 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolAlign/AlignMolecules.h -rw-r--r-- root/root 13034 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolAlign/O3AAlignMolecules.h -rw-r--r-- root/root 2661 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolBundle.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/MolCatalog/ -rw-r--r-- root/root 429 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolCatalog/MolCatalog.h -rw-r--r-- root/root 2840 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolCatalog/MolCatalogEntry.h -rw-r--r-- root/root 1051 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolCatalog/MolCatalogParams.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/ -rw-r--r-- root/root 2092 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/FeatureParser.h -rw-r--r-- root/root 3221 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeature.h -rw-r--r-- root/root 2132 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h -rw-r--r-- root/root 2788 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/MolDraw2D/ -rw-r--r-- root/root 22456 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2D.h -rw-r--r-- root/root 2380 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DDetails.h -rw-r--r-- root/root 3722 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DSVG.h -rw-r--r-- root/root 3700 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DUtils.h -rw-r--r-- root/root 3328 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2Dwx.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/MolHash/ -rw-r--r-- root/root 2804 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolHash/MolHash.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/MolInterchange/ -rw-r--r-- root/root 2604 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolInterchange/MolInterchange.h -rw-r--r-- root/root 1874 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolInterchange/details.h -rw-r--r-- root/root 37019 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolOps.h -rw-r--r-- root/root 9046 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolPickler.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/MolStandardize/ -rw-r--r-- root/root 1549 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogEntry.h -rw-r--r-- root/root 1651 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogParams.h -rw-r--r-- root/root 948 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogUtils.h -rw-r--r-- root/root 3666 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/Charge.h -rw-r--r-- root/root 2573 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/Fragment.h -rw-r--r-- root/root 1592 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogEntry.h -rw-r--r-- root/root 1630 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogParams.h -rw-r--r-- root/root 901 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogUtils.h -rw-r--r-- root/root 1687 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/Metal.h -rw-r--r-- root/root 5056 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/MolStandardize.h -rw-r--r-- root/root 3233 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/Normalize.h -rw-r--r-- root/root 2231 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/Tautomer.h -rw-r--r-- root/root 1542 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogEntry.h -rw-r--r-- root/root 1659 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogParams.h -rw-r--r-- root/root 2064 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogUtils.h -rw-r--r-- root/root 1539 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogEntry.h -rw-r--r-- root/root 1762 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogParams.h -rw-r--r-- root/root 972 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogUtils.h -rw-r--r-- root/root 6735 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolStandardize/Validate.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/MolTransforms/ -rw-r--r-- root/root 8655 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MolTransforms/MolTransforms.h -rw-r--r-- root/root 5524 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/MonomerInfo.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/PartialCharges/ -rw-r--r-- root/root 931 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/PartialCharges/GasteigerCharges.h -rw-r--r-- root/root 2589 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/PartialCharges/GasteigerParams.h -rw-r--r-- root/root 11285 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/PeriodicTable.h -rw-r--r-- root/root 3325 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/QueryAtom.h -rw-r--r-- root/root 3553 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/QueryBond.h -rw-r--r-- root/root 35199 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/QueryOps.h -rw-r--r-- root/root 852 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/RDKitBase.h -rw-r--r-- root/root 581 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/RDKitQueries.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/RGroupDecomposition/ -rw-r--r-- root/root 4589 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecomp.h -rw-r--r-- root/root 23478 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ROMol.h -rw-r--r-- root/root 6816 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/RWMol.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/ReducedGraphs/ -rw-r--r-- root/root 2705 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ReducedGraphs/ReducedGraphs.h -rw-r--r-- root/root 6603 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Resonance.h -rw-r--r-- root/root 3875 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/RingInfo.h -rw-r--r-- root/root 3459 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Rings.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/SLNParse/ -rw-r--r-- root/root 3394 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SLNParse/SLNAttribs.h -rw-r--r-- root/root 2741 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SLNParse/SLNParse.h -rw-r--r-- root/root 11522 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SLNParse/SLNParseOps.h -rw-r--r-- root/root 946 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SanitException.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/ShapeHelpers/ -rw-r--r-- root/root 2925 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ShapeHelpers/ShapeEncoder.h -rw-r--r-- root/root 12695 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/ShapeHelpers/ShapeUtils.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/SmilesParse/ -rw-r--r-- root/root 872 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SmilesParse/SmartsWrite.h -rw-r--r-- root/root 4517 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SmilesParse/SmilesParse.h -rw-r--r-- root/root 1673 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SmilesParse/SmilesParseOps.h -rw-r--r-- root/root 7057 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SmilesParse/SmilesWrite.h -rw-r--r-- root/root 485 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SmilesParse/primes.h -rw-r--r-- root/root 1993 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/StereoGroup.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/StructChecker/ -rw-r--r-- root/root 1705 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/StructChecker/Pattern.h -rw-r--r-- root/root 1637 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/StructChecker/ReCharge.h -rw-r--r-- root/root 2979 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/StructChecker/Stereo.h -rw-r--r-- root/root 636 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/StructChecker/StripSmallFragments.h -rw-r--r-- root/root 9150 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/StructChecker/StructChecker.h -rw-r--r-- root/root 686 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/StructChecker/Tautomer.h -rw-r--r-- root/root 1086 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/StructChecker/Utilites.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/Subgraphs/ -rw-r--r-- root/root 1975 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Subgraphs/SubgraphUtils.h -rw-r--r-- root/root 6117 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Subgraphs/Subgraphs.h -rw-r--r-- root/root 6458 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SubstanceGroup.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/Substruct/ -rw-r--r-- root/root 8138 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Substruct/SubstructMatch.h -rw-r--r-- root/root 1172 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Substruct/SubstructUtils.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/SubstructLibrary/ -rw-r--r-- root/root 21692 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrary.h -rw-r--r-- root/root 6670 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/GraphMol/Trajectory/ -rw-r--r-- root/root 2301 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Trajectory/Snapshot.h -rw-r--r-- root/root 4597 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/Trajectory/Trajectory.h -rw-r--r-- root/root 2172 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/atomic_data.h -rw-r--r-- root/root 373 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/details.h -rw-r--r-- root/root 23526 2019-04-08 18:44 ./usr/include/rdkit/GraphMol/new_canon.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/Numerics/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/Numerics/Alignment/ -rw-r--r-- root/root 1569 2019-04-08 18:44 ./usr/include/rdkit/Numerics/Alignment/AlignPoints.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/Numerics/EigenSolvers/ -rw-r--r-- root/root 2082 2019-04-08 18:44 ./usr/include/rdkit/Numerics/EigenSolvers/PowerEigenSolver.h -rw-r--r-- root/root 10349 2019-04-08 18:44 ./usr/include/rdkit/Numerics/Matrix.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/Numerics/Optimizer/ -rw-r--r-- root/root 13236 2019-04-08 18:44 ./usr/include/rdkit/Numerics/Optimizer/BFGSOpt.h -rw-r--r-- root/root 2420 2019-04-08 18:44 ./usr/include/rdkit/Numerics/SquareMatrix.h -rw-r--r-- root/root 10153 2019-04-08 18:44 ./usr/include/rdkit/Numerics/SymmMatrix.h -rw-r--r-- root/root 8407 2019-04-08 18:44 ./usr/include/rdkit/Numerics/Vector.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/Query/ -rw-r--r-- root/root 1694 2019-04-08 18:44 ./usr/include/rdkit/Query/AndQuery.h -rw-r--r-- root/root 2734 2019-04-08 18:44 ./usr/include/rdkit/Query/EqualityQuery.h -rw-r--r-- root/root 2329 2019-04-08 18:44 ./usr/include/rdkit/Query/GreaterEqualQuery.h -rw-r--r-- root/root 2250 2019-04-08 18:44 ./usr/include/rdkit/Query/GreaterQuery.h -rw-r--r-- root/root 2303 2019-04-08 18:44 ./usr/include/rdkit/Query/LessEqualQuery.h -rw-r--r-- root/root 2226 2019-04-08 18:44 ./usr/include/rdkit/Query/LessQuery.h -rw-r--r-- root/root 1685 2019-04-08 18:44 ./usr/include/rdkit/Query/OrQuery.h -rw-r--r-- root/root 6483 2019-04-08 18:44 ./usr/include/rdkit/Query/Query.h -rw-r--r-- root/root 839 2019-04-08 18:44 ./usr/include/rdkit/Query/QueryObjects.h -rw-r--r-- root/root 3770 2019-04-08 18:44 ./usr/include/rdkit/Query/RangeQuery.h -rw-r--r-- root/root 2567 2019-04-08 18:44 ./usr/include/rdkit/Query/SetQuery.h -rw-r--r-- root/root 1773 2019-04-08 18:44 ./usr/include/rdkit/Query/XOrQuery.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/RDBoost/ -rw-r--r-- root/root 2239 2019-04-08 18:44 ./usr/include/rdkit/RDBoost/PySequenceHolder.h -rw-r--r-- root/root 6343 2019-04-08 18:44 ./usr/include/rdkit/RDBoost/Wrap.h -rw-r--r-- root/root 342 2019-04-08 18:44 ./usr/include/rdkit/RDBoost/boost_numpy.h -rw-r--r-- root/root 7525 2019-04-08 18:44 ./usr/include/rdkit/RDBoost/list_indexing_suite.hpp -rw-r--r-- root/root 329 2019-04-08 18:44 ./usr/include/rdkit/RDBoost/python.h -rw-r--r-- root/root 16121 2019-04-08 18:44 ./usr/include/rdkit/RDBoost/python_streambuf.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/RDGeneral/ -rw-r--r-- root/root 1046 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/BadFileException.h -rw-r--r-- root/root 2898 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/BoostEndInclude.h -rw-r--r-- root/root 3805 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/BoostStartInclude.h -rw-r--r-- root/root 9402 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/Dict.h -rw-r--r-- root/root 1700 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/Exceptions.h -rw-r--r-- root/root 1028 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/FileParseException.h -rw-r--r-- root/root 7099 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/Invariant.h -rw-r--r-- root/root 2156 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/LocaleSwitcher.h -rw-r--r-- root/root 6117 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/RDAny.h -rw-r--r-- root/root 887 2019-12-09 13:41 ./usr/include/rdkit/RDGeneral/RDConfig.h -rw-r--r-- root/root 3189 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/RDLog.h -rw-r--r-- root/root 4966 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/RDProps.h -rw-r--r-- root/root 871 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/RDThreads.h -rw-r--r-- root/root 15826 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/RDValue-doublemagic.h -rw-r--r-- root/root 12640 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/RDValue-taggedunion.h -rw-r--r-- root/root 8365 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/RDValue.h -rw-r--r-- root/root 2445 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/Ranking.h -rw-r--r-- root/root 16565 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/StreamOps.h -rw-r--r-- root/root 22722 2019-12-09 13:41 ./usr/include/rdkit/RDGeneral/export.h -rw-r--r-- root/root 3601 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/hanoiSort.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/RDGeneral/hash/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/RDGeneral/hash/hash/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/RDGeneral/hash/hash/detail/ -rw-r--r-- root/root 4769 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/hash/hash/detail/float_functions.hpp -rw-r--r-- root/root 5851 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/hash/hash/detail/hash_float.hpp -rw-r--r-- root/root 4988 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/hash/hash/extensions.hpp -rw-r--r-- root/root 14786 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/hash/hash/hash.hpp -rw-r--r-- root/root 1250 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/hash/hash/hash_fwd.hpp -rw-r--r-- root/root 4048 2019-12-09 13:41 ./usr/include/rdkit/RDGeneral/test.h -rw-r--r-- root/root 14721 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/types.h -rw-r--r-- root/root 3058 2019-04-08 18:44 ./usr/include/rdkit/RDGeneral/utils.h -rw-r--r-- root/root 876 2019-12-09 13:41 ./usr/include/rdkit/RDGeneral/versions.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/include/rdkit/SimDivPickers/ -rw-r--r-- root/root 2320 2019-04-08 18:44 ./usr/include/rdkit/SimDivPickers/DistPicker.h -rw-r--r-- root/root 3670 2019-04-08 18:44 ./usr/include/rdkit/SimDivPickers/HierarchicalClusterPicker.h -rw-r--r-- root/root 10432 2019-04-08 18:44 ./usr/include/rdkit/SimDivPickers/MaxMinPicker.h drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/ lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitAlignment.so -> libRDKitAlignment.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitCatalogs.so -> libRDKitCatalogs.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitChemReactions.so -> libRDKitChemReactions.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitChemTransforms.so -> libRDKitChemTransforms.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitChemicalFeatures.so -> libRDKitChemicalFeatures.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDataStructs.so -> libRDKitDataStructs.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDepictor.so -> libRDKitDepictor.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDescriptors.so -> libRDKitDescriptors.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDistGeomHelpers.so -> libRDKitDistGeomHelpers.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDistGeometry.so -> libRDKitDistGeometry.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitEigenSolvers.so -> libRDKitEigenSolvers.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFMCS.so -> libRDKitFMCS.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFileParsers.so -> libRDKitFileParsers.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFilterCatalog.so -> libRDKitFilterCatalog.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFingerprints.so -> libRDKitFingerprints.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitForceField.so -> libRDKitForceField.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitForceFieldHelpers.so -> libRDKitForceFieldHelpers.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFragCatalog.so -> libRDKitFragCatalog.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitGraphMol.so -> libRDKitGraphMol.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitInfoTheory.so -> libRDKitInfoTheory.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMMPA.so -> libRDKitMMPA.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolAlign.so -> libRDKitMolAlign.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolCatalog.so -> libRDKitMolCatalog.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolChemicalFeatures.so -> libRDKitMolChemicalFeatures.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolDraw2D.so -> libRDKitMolDraw2D.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolHash.so -> libRDKitMolHash.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolInterchange.so -> libRDKitMolInterchange.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolStandardize.so -> libRDKitMolStandardize.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolTransforms.so -> libRDKitMolTransforms.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitOptimizer.so -> libRDKitOptimizer.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitPartialCharges.so -> libRDKitPartialCharges.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitRDBoost.so -> libRDKitRDBoost.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitRDGeneral.so -> libRDKitRDGeneral.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitRDGeometryLib.so -> libRDKitRDGeometryLib.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitRGroupDecomposition.so -> libRDKitRGroupDecomposition.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitReducedGraphs.so -> libRDKitReducedGraphs.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSLNParse.so -> libRDKitSLNParse.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitShapeHelpers.so -> libRDKitShapeHelpers.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSimDivPickers.so -> libRDKitSimDivPickers.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSmilesParse.so -> libRDKitSmilesParse.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitStructChecker.so -> libRDKitStructChecker.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSubgraphs.so -> libRDKitSubgraphs.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSubstructLibrary.so -> libRDKitSubstructLibrary.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSubstructMatch.so -> libRDKitSubstructMatch.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitTrajectory.so -> libRDKitTrajectory.so.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKithc.so -> libRDKithc.so.1 drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/doc/librdkit-dev/ lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/share/doc/librdkit-dev/changelog.Debian.gz -> ../librdkit1/changelog.Debian.gz -rw-r--r-- root/root 6705 2019-08-20 05:11 ./usr/share/doc/librdkit-dev/copyright librdkit1_201903.1-2ubuntu1_armhf.deb ------------------------------------- new debian package, version 2.0. size 2534696 bytes: control archive=2884 bytes. 1751 bytes, 38 lines control 3769 bytes, 49 lines md5sums 1481 bytes, 46 lines shlibs 74 bytes, 2 lines triggers Package: librdkit1 Source: rdkit Version: 201903.1-2ubuntu1 Architecture: armhf Maintainer: Ubuntu Developers Installed-Size: 8909 Depends: libboost-python1.67.0, libboost-serialization1.67.0, libc6 (>= 2.29), libgcc1 (>= 1:3.5), libpython3.7 (>= 3.7.0), libschroedinger-coordgenlibs1, libschroedinger-maeparser1, libstdc++6 (>= 9) Section: libs Priority: optional Homepage: http://www.rdkit.org Description: Collection of cheminformatics and machine-learning software (shared libraries) RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. . This package contains the shared libraries. Original-Maintainer: Debichem Team drwxr-xr-x root/root 0 2019-12-09 13:41 ./ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/ lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitAlignment.so.1 -> libRDKitAlignment.so.1.2019.03.1 -rw-r--r-- root/root 21924 2019-12-09 13:41 ./usr/lib/libRDKitAlignment.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitCatalogs.so.1 -> libRDKitCatalogs.so.1.2019.03.1 -rw-r--r-- root/root 5488 2019-12-09 13:41 ./usr/lib/libRDKitCatalogs.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitChemReactions.so.1 -> libRDKitChemReactions.so.1.2019.03.1 -rw-r--r-- root/root 701860 2019-12-09 13:41 ./usr/lib/libRDKitChemReactions.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitChemTransforms.so.1 -> libRDKitChemTransforms.so.1.2019.03.1 -rw-r--r-- root/root 173476 2019-12-09 13:41 ./usr/lib/libRDKitChemTransforms.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitChemicalFeatures.so.1 -> libRDKitChemicalFeatures.so.1.2019.03.1 -rw-r--r-- root/root 9580 2019-12-09 13:41 ./usr/lib/libRDKitChemicalFeatures.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDataStructs.so.1 -> libRDKitDataStructs.so.1.2019.03.1 -rw-r--r-- root/root 173476 2019-12-09 13:41 ./usr/lib/libRDKitDataStructs.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDepictor.so.1 -> libRDKitDepictor.so.1.2019.03.1 -rw-r--r-- root/root 165344 2019-12-09 13:41 ./usr/lib/libRDKitDepictor.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDescriptors.so.1 -> libRDKitDescriptors.so.1.2019.03.1 -rw-r--r-- root/root 240216 2019-12-09 13:41 ./usr/lib/libRDKitDescriptors.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDistGeomHelpers.so.1 -> libRDKitDistGeomHelpers.so.1.2019.03.1 -rw-r--r-- root/root 161188 2019-12-09 13:41 ./usr/lib/libRDKitDistGeomHelpers.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitDistGeometry.so.1 -> libRDKitDistGeometry.so.1.2019.03.1 -rw-r--r-- root/root 95652 2019-12-09 13:41 ./usr/lib/libRDKitDistGeometry.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitEigenSolvers.so.1 -> libRDKitEigenSolvers.so.1.2019.03.1 -rw-r--r-- root/root 17828 2019-12-09 13:41 ./usr/lib/libRDKitEigenSolvers.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFMCS.so.1 -> libRDKitFMCS.so.1.2019.03.1 -rw-r--r-- root/root 181668 2019-12-09 13:41 ./usr/lib/libRDKitFMCS.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFileParsers.so.1 -> libRDKitFileParsers.so.1.2019.03.1 -rw-r--r-- root/root 923560 2019-12-09 13:41 ./usr/lib/libRDKitFileParsers.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFilterCatalog.so.1 -> libRDKitFilterCatalog.so.1.2019.03.1 -rw-r--r-- root/root 660908 2019-12-09 13:41 ./usr/lib/libRDKitFilterCatalog.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFingerprints.so.1 -> libRDKitFingerprints.so.1.2019.03.1 -rw-r--r-- root/root 271860 2019-12-09 13:41 ./usr/lib/libRDKitFingerprints.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitForceField.so.1 -> libRDKitForceField.so.1.2019.03.1 -rw-r--r-- root/root 538020 2019-12-09 13:41 ./usr/lib/libRDKitForceField.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitForceFieldHelpers.so.1 -> libRDKitForceFieldHelpers.so.1.2019.03.1 -rw-r--r-- root/root 296356 2019-12-09 13:41 ./usr/lib/libRDKitForceFieldHelpers.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitFragCatalog.so.1 -> libRDKitFragCatalog.so.1.2019.03.1 -rw-r--r-- root/root 99748 2019-12-09 13:41 ./usr/lib/libRDKitFragCatalog.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitGraphMol.so.1 -> libRDKitGraphMol.so.1.2019.03.1 -rw-r--r-- root/root 992676 2019-12-09 13:41 ./usr/lib/libRDKitGraphMol.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitInfoTheory.so.1 -> libRDKitInfoTheory.so.1.2019.03.1 -rw-r--r-- root/root 30116 2019-12-09 13:41 ./usr/lib/libRDKitInfoTheory.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMMPA.so.1 -> libRDKitMMPA.so.1.2019.03.1 -rw-r--r-- root/root 54692 2019-12-09 13:41 ./usr/lib/libRDKitMMPA.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolAlign.so.1 -> libRDKitMolAlign.so.1.2019.03.1 -rw-r--r-- root/root 144804 2019-12-09 13:41 ./usr/lib/libRDKitMolAlign.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolCatalog.so.1 -> libRDKitMolCatalog.so.1.2019.03.1 -rw-r--r-- root/root 30116 2019-12-09 13:41 ./usr/lib/libRDKitMolCatalog.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolChemicalFeatures.so.1 -> libRDKitMolChemicalFeatures.so.1.2019.03.1 -rw-r--r-- root/root 99748 2019-12-09 13:41 ./usr/lib/libRDKitMolChemicalFeatures.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolDraw2D.so.1 -> libRDKitMolDraw2D.so.1.2019.03.1 -rw-r--r-- root/root 284148 2019-12-09 13:41 ./usr/lib/libRDKitMolDraw2D.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolHash.so.1 -> libRDKitMolHash.so.1.2019.03.1 -rw-r--r-- root/root 83368 2019-12-09 13:41 ./usr/lib/libRDKitMolHash.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolInterchange.so.1 -> libRDKitMolInterchange.so.1.2019.03.1 -rw-r--r-- root/root 161188 2019-12-09 13:41 ./usr/lib/libRDKitMolInterchange.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolStandardize.so.1 -> libRDKitMolStandardize.so.1.2019.03.1 -rw-r--r-- root/root 320936 2019-12-09 13:41 ./usr/lib/libRDKitMolStandardize.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitMolTransforms.so.1 -> libRDKitMolTransforms.so.1.2019.03.1 -rw-r--r-- root/root 62884 2019-12-09 13:41 ./usr/lib/libRDKitMolTransforms.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitOptimizer.so.1 -> libRDKitOptimizer.so.1.2019.03.1 -rw-r--r-- root/root 5388 2019-12-09 13:41 ./usr/lib/libRDKitOptimizer.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitPartialCharges.so.1 -> libRDKitPartialCharges.so.1.2019.03.1 -rw-r--r-- root/root 50596 2019-12-09 13:41 ./usr/lib/libRDKitPartialCharges.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitRDBoost.so.1 -> libRDKitRDBoost.so.1.2019.03.1 -rw-r--r-- root/root 9580 2019-12-09 13:41 ./usr/lib/libRDKitRDBoost.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitRDGeneral.so.1 -> libRDKitRDGeneral.so.1.2019.03.1 -rw-r--r-- root/root 79228 2019-12-09 13:41 ./usr/lib/libRDKitRDGeneral.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitRDGeometryLib.so.1 -> libRDKitRDGeometryLib.so.1.2019.03.1 -rw-r--r-- root/root 83368 2019-12-09 13:41 ./usr/lib/libRDKitRDGeometryLib.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitRGroupDecomposition.so.1 -> libRDKitRGroupDecomposition.so.1.2019.03.1 -rw-r--r-- root/root 116132 2019-12-09 13:41 ./usr/lib/libRDKitRGroupDecomposition.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitReducedGraphs.so.1 -> libRDKitReducedGraphs.so.1.2019.03.1 -rw-r--r-- root/root 54712 2019-12-09 13:41 ./usr/lib/libRDKitReducedGraphs.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSLNParse.so.1 -> libRDKitSLNParse.so.1.2019.03.1 -rw-r--r-- root/root 255908 2019-12-09 13:41 ./usr/lib/libRDKitSLNParse.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitShapeHelpers.so.1 -> libRDKitShapeHelpers.so.1.2019.03.1 -rw-r--r-- root/root 21924 2019-12-09 13:41 ./usr/lib/libRDKitShapeHelpers.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSimDivPickers.so.1 -> libRDKitSimDivPickers.so.1.2019.03.1 -rw-r--r-- root/root 17828 2019-12-09 13:41 ./usr/lib/libRDKitSimDivPickers.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSmilesParse.so.1 -> libRDKitSmilesParse.so.1.2019.03.1 -rw-r--r-- root/root 382372 2019-12-09 13:41 ./usr/lib/libRDKitSmilesParse.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitStructChecker.so.1 -> libRDKitStructChecker.so.1.2019.03.1 -rw-r--r-- root/root 297524 2019-12-09 13:41 ./usr/lib/libRDKitStructChecker.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSubgraphs.so.1 -> libRDKitSubgraphs.so.1.2019.03.1 -rw-r--r-- root/root 54692 2019-12-09 13:41 ./usr/lib/libRDKitSubgraphs.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSubstructLibrary.so.1 -> libRDKitSubstructLibrary.so.1.2019.03.1 -rw-r--r-- root/root 378276 2019-12-09 13:41 ./usr/lib/libRDKitSubstructLibrary.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitSubstructMatch.so.1 -> libRDKitSubstructMatch.so.1.2019.03.1 -rw-r--r-- root/root 95652 2019-12-09 13:41 ./usr/lib/libRDKitSubstructMatch.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKitTrajectory.so.1 -> libRDKitTrajectory.so.1.2019.03.1 -rw-r--r-- root/root 50620 2019-12-09 13:41 ./usr/lib/libRDKitTrajectory.so.1.2019.03.1 lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/libRDKithc.so.1 -> libRDKithc.so.1.2019.03.1 -rw-r--r-- root/root 5336 2019-12-09 13:41 ./usr/lib/libRDKithc.so.1.2019.03.1 drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/doc/librdkit1/ -rw-r--r-- root/root 1626 2019-12-09 13:41 ./usr/share/doc/librdkit1/changelog.Debian.gz -rw-r--r-- root/root 6705 2019-08-20 05:11 ./usr/share/doc/librdkit1/copyright drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/lintian/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 107 2019-08-20 05:11 ./usr/share/lintian/overrides/librdkit1 postgresql-11-rdkit_201903.1-2ubuntu1_armhf.deb ----------------------------------------------- new debian package, version 2.0. size 360504 bytes: control archive=1676 bytes. 1646 bytes, 38 lines control 1498 bytes, 18 lines md5sums Package: postgresql-11-rdkit Source: rdkit Version: 201903.1-2ubuntu1 Architecture: armhf Maintainer: Ubuntu Developers Installed-Size: 942 Depends: libc6 (>= 2.4), libgcc1 (>= 1:3.5), librdkit1, libstdc++6 (>= 9), postgresql-11 Section: database Priority: optional Homepage: http://www.rdkit.org Description: Cheminformatics and machine-learning software (PostgreSQL Cartridge) RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. . This package contains the PostgreSQL extension. Original-Maintainer: Debichem Team drwxr-xr-x root/root 0 2019-12-09 13:41 ./ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/postgresql/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/postgresql/11/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/ -rw-r--r-- root/root 37556 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit.index.bc drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/ -rw-r--r-- root/root 408612 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/adapter.bc -rw-r--r-- root/root 6724 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/bfp_gin.bc -rw-r--r-- root/root 15408 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/bfp_gist.bc -rw-r--r-- root/root 16780 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/bfp_op.bc -rw-r--r-- root/root 7984 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/bitstring.bc -rw-r--r-- root/root 14840 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/cache.bc -rw-r--r-- root/root 14376 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/guc.bc -rw-r--r-- root/root 12804 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/low_gist.bc -rw-r--r-- root/root 35672 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/mol_op.bc -rw-r--r-- root/root 17640 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/rdkit_gist.bc -rw-r--r-- root/root 20212 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/rdkit_io.bc -rw-r--r-- root/root 9964 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/rxn_op.bc -rw-r--r-- root/root 14680 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/bitcode/rdkit/sfp_op.bc -rw-r--r-- root/root 189968 2019-12-09 13:41 ./usr/lib/postgresql/11/lib/rdkit.so drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/doc/postgresql-11-rdkit/ lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/share/doc/postgresql-11-rdkit/changelog.Debian.gz -> ../librdkit1/changelog.Debian.gz -rw-r--r-- root/root 6705 2019-08-20 05:11 ./usr/share/doc/postgresql-11-rdkit/copyright drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/postgresql/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/postgresql/11/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/postgresql/11/extension/ -rw-r--r-- root/root 42614 2019-12-09 13:41 ./usr/share/postgresql/11/extension/rdkit--3.7.sql -rw-r--r-- root/root 135 2019-12-09 13:41 ./usr/share/postgresql/11/extension/rdkit.control python3-rdkit_201903.1-2ubuntu1_armhf.deb ----------------------------------------- new debian package, version 2.0. size 2597268 bytes: control archive=12456 bytes. 1873 bytes, 39 lines control 44427 bytes, 448 lines md5sums 252 bytes, 12 lines * postinst #!/bin/sh 401 bytes, 12 lines * prerm #!/bin/sh Package: python3-rdkit Source: rdkit Version: 201903.1-2ubuntu1 Architecture: armhf Maintainer: Ubuntu Developers Installed-Size: 13950 Depends: fonts-freefont-ttf, rdkit-data, python3 (<< 3.8), python3 (>= 3.7~), python3-numpy (>= 1:1.16.0~rc1), python3-numpy-abi9, python3:any, libboost-python1.67.0, libc6 (>= 2.29), libgcc1 (>= 1:3.5), libpython3.7 (>= 3.7.0), librdkit1, libschroedinger-coordgenlibs1, libschroedinger-maeparser1, libstdc++6 (>= 9) Suggests: rdkit-doc Provides: python3.7-rdkit Section: python Priority: optional Homepage: http://www.rdkit.org Description: Collection of cheminformatics and machine-learning software RDKit is a Python/C++ based cheminformatics and machine-learning software environment. Features Include: . * Chemical reaction handling and transforms * Substructure searching with SMARTS * Canonical SMILES * Molecule-molecule alignment * Large number of molecular descriptors, including topological, compositional, EState, SlogP/SMR, VSA and Feature-map vectors * Fragmentation using RECAP rules * 2D coordinate generation and depiction, including constrained depiction * 3D coordinate generation using geometry embedding * UFF and MMFF94 forcefields * Chirality support, including calculation of (R/S) stereochemistry codes * 2D pharmacophore searching * Fingerprinting, including Daylight-like, atom pairs, topological torsions, Morgan algorithm and MACCS keys * Calculation of shape similarity * Multi-molecule maximum common substructure * Machine-learning via clustering and information theory algorithms * Gasteiger-Marsili partial charge calculation . File formats RDKit supports include MDL Mol, PDB, SDF, TDT, SMILES and RDKit binary format. Original-Maintainer: Debichem Team Python-Version: 3.7 drwxr-xr-x root/root 0 2019-12-09 13:41 ./ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Avalon/ -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Avalon/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/ -rw-r--r-- root/root 16559 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/AllChem.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/ -rw-r--r-- root/root 5642 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Pairs.py -rw-r--r-- root/root 3280 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Sheridan.py -rw-r--r-- root/root 5371 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Torsions.py -rw-r--r-- root/root 9279 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Utils.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/__init__.py -rw-r--r-- root/root 35102 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/BRICS.py -rw-r--r-- root/root 20973 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/BuildFragmentCatalog.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/ -rw-r--r-- root/root 2957 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/AlignDepict.py -rw-r--r-- root/root 1974 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/BulkTester.py -rw-r--r-- root/root 521 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/DescriptorUtilities.py -rw-r--r-- root/root 2530 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/SDFToCSV.py -rw-r--r-- root/root 14372 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/TemplateExpand.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/__init__.py -rw-r--r-- root/root 719 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemicalFeatures.py -rw-r--r-- root/root 363 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ChemicalForceFields.py -rw-r--r-- root/root 6112 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Crippen.py -rw-r--r-- root/root 12113 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/DSViewer.py -rw-r--r-- root/root 7248 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Descriptors.py -rw-r--r-- root/root 5896 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Descriptors3D.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/ lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/FreeSans.ttf -> ../../../../../../share/fonts/truetype/freefont/FreeSans.ttf -rw-r--r-- root/root 10012 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/IPythonConsole.py -rw-r--r-- root/root 22104 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/MolDrawing.py -rw-r--r-- root/root 16526 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/SimilarityMaps.py -rw-r--r-- root/root 28425 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/__init__.py -rw-r--r-- root/root 5948 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/aggCanvas.py -rw-r--r-- root/root 16369 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/cairoCanvas.py -rw-r--r-- root/root 2571 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/canvasbase.py -rw-r--r-- root/root 3481 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/mplCanvas.py -rw-r--r-- root/root 3567 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/qtCanvas.py -rw-r--r-- root/root 352524 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/rdMolDraw2D.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 3631 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Draw/spingCanvas.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/EState/ -rw-r--r-- root/root 4018 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/EState/AtomTypes.py -rw-r--r-- root/root 2532 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/EState/EState.py -rw-r--r-- root/root 3552 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/EState/EState_VSA.py -rw-r--r-- root/root 2137 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/EState/Fingerprinter.py -rw-r--r-- root/root 386 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/EState/__init__.py -rw-r--r-- root/root 12069 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/EnumerateHeterocycles.py -rw-r--r-- root/root 13803 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/EnumerateStereoisomers.py -rw-r--r-- root/root 498 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FastSDMolSupplier.py -rw-r--r-- root/root 3328 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FeatFinderCLI.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/ -rw-r--r-- root/root 5307 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapParser.py -rw-r--r-- root/root 3283 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapPoint.py -rw-r--r-- root/root 7261 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapUtils.py -rw-r--r-- root/root 7458 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMaps.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Features/ -rw-r--r-- root/root 12293 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Features/FeatDirUtilsRD.py -rw-r--r-- root/root 12210 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Features/ShowFeats.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Features/__init__.py -rw-r--r-- root/root 2162 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FilterCatalog.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/ -rw-r--r-- root/root 5671 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/ClusterMols.py -rw-r--r-- root/root 4652 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/DbFpSupplier.py -rw-r--r-- root/root 17540 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/FingerprintMols.py -rw-r--r-- root/root 10299 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/MolSimilarity.py -rw-r--r-- root/root 5016 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/SimilarityScreener.py -rw-r--r-- root/root 67 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Fraggle/ -rw-r--r-- root/root 14463 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Fraggle/FraggleSim.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Fraggle/__init__.py -rw-r--r-- root/root 2420 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FragmentCatalog.py -rw-r--r-- root/root 2264 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FragmentMatcher.py -rw-r--r-- root/root 1619 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Fragments.py -rw-r--r-- root/root 5470 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/FunctionalGroups.py -rw-r--r-- root/root 20296 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/GraphDescriptors.py -rw-r--r-- root/root 1365 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Graphs.py -rw-r--r-- root/root 4135 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Lipinski.py -rw-r--r-- root/root 11754 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MACCSkeys.py -rw-r--r-- root/root 17304 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MCS.py -rw-r--r-- root/root 84 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolCatalog.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/MolDb/ -rw-r--r-- root/root 3728 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolDb/FingerprintUtils.py -rw-r--r-- root/root 408 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolDb/Loader.py -rw-r--r-- root/root 6741 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolDb/Loader_orig.py -rw-r--r-- root/root 6245 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolDb/Loader_sa.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolDb/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/MolKey/ -rw-r--r-- root/root 7306 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolKey/InchiInfo.py -rw-r--r-- root/root 15512 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolKey/MolKey.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolKey/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/ -rw-r--r-- root/root 928 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/__init__.py -rw-r--r-- root/root 15148 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/charge.py -rw-r--r-- root/root 478 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/errors.py -rw-r--r-- root/root 11295 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/fragment.py -rw-r--r-- root/root 3086 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/metal.py -rw-r--r-- root/root 9676 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/normalize.py -rw-r--r-- root/root 385004 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/rdMolStandardize.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 3757 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/resonance.py -rw-r--r-- root/root 14280 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/standardize.py -rw-r--r-- root/root 17822 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/tautomer.py -rw-r--r-- root/root 748 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/utils.py -rw-r--r-- root/root 4196 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/validate.py -rw-r--r-- root/root 7169 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/validations.py -rw-r--r-- root/root 14675 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/MolSurf.py -rw-r--r-- root/root 23826 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/PandasTools.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/ -rw-r--r-- root/root 5053 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Generate.py -rw-r--r-- root/root 1901 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Gobbi_Pharm2D.py -rw-r--r-- root/root 4270 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/LazyGenerator.py -rw-r--r-- root/root 4042 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Matcher.py -rw-r--r-- root/root 11319 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/SigFactory.py -rw-r--r-- root/root 13122 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Utils.py -rw-r--r-- root/root 888 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/ -rw-r--r-- root/root 40102 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/EmbedLib.py -rw-r--r-- root/root 918 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/ExcludedVolume.py -rw-r--r-- root/root 5917 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/Pharmacophore.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/__init__.py -rw-r--r-- root/root 3184 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/PropertyMol.py -rw-r--r-- root/root 8405 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/PyMol.py -rw-r--r-- root/root 11480 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/QED.py -rw-r--r-- root/root 1788 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Randomize.py -rw-r--r-- root/root 24160 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Recap.py -rw-r--r-- root/root 562 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ReducedGraphs.py -rw-r--r-- root/root 2807 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/SATIS.py -rw-r--r-- root/root 10606 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/SaltRemover.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/ -rw-r--r-- root/root 4158 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/MurckoScaffold.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/__init__.py -rw-r--r-- root/root 931 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/ShowMols.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/SimpleEnum/ -rw-r--r-- root/root 8962 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/SimpleEnum/Enumerator.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/SimpleEnum/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Subshape/ -rw-r--r-- root/root 10858 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Subshape/BuilderUtils.py -rw-r--r-- root/root 13373 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Subshape/SubshapeAligner.py -rw-r--r-- root/root 4199 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Subshape/SubshapeBuilder.py -rw-r--r-- root/root 2412 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Subshape/SubshapeObjects.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Subshape/__init__.py -rw-r--r-- root/root 1679 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Subshape/testCombined.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/ -rw-r--r-- root/root 4093 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/DbMolSupplier.py -rw-r--r-- root/root 851 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/MolSupplier.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/__init__.py -rw-r--r-- root/root 3288 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/TemplateAlign.py -rw-r--r-- root/root 24314 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/TorsionFingerprints.py -rw-r--r-- root/root 3631 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/fmcs/ -rw-r--r-- root/root 141 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/fmcs/__init__.py -rw-r--r-- root/root 152 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/fmcs/fmcs -rw-r--r-- root/root 105634 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Chem/fmcs/fmcs.py -rw-r--r-- root/root 1686 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/inchi.py -rw-r--r-- root/root 1037200 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdChemReactions.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 83980 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdChemicalFeatures.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 100400 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdCoordGen.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 67488 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdDepictor.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 145996 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdDistGeom.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 166620 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdFMCS.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 208024 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdFingerprintGenerator.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 121312 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdForceFieldHelpers.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 46852 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdMMPA.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 166692 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdMolAlign.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 153960 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdMolCatalog.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 145672 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdMolChemicalFeatures.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 385988 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdMolDescriptors.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 22048 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdMolHash.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 59128 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdMolInterchange.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 92436 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdMolTransforms.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 17940 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdPartialCharges.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 178824 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdRGroupDecomposition.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 38516 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdReducedGraphs.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 34336 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdSLNParse.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 96460 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdShapeHelpers.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 108676 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdStructChecker.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 249180 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdSubstructLibrary.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 1914812 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdchem.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 743692 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdfiltercatalog.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 186908 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdfragcatalog.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 765596 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdmolfiles.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 439704 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdmolops.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 211328 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdqueries.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 113012 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Chem/rdtrajectory.cpython-37m-arm-linux-gnueabihf.so drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/DataManip/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/DataManip/Metric/ -rw-r--r-- root/root 363 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataManip/Metric/__init__.py -rw-r--r-- root/root 46600 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/DataManip/Metric/rdMetricMatrixCalc.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 21 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataManip/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/DataStructs/ -rw-r--r-- root/root 1192 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataStructs/BitEnsemble.py -rw-r--r-- root/root 1569 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataStructs/BitEnsembleDb.py -rw-r--r-- root/root 1132 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataStructs/BitUtils.py -rw-r--r-- root/root 3875 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataStructs/HierarchyVis.py -rw-r--r-- root/root 1472 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataStructs/LazySignature.py -rw-r--r-- root/root 2037 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataStructs/TopNContainer.py -rw-r--r-- root/root 6943 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataStructs/VectCollection.py -rw-r--r-- root/root 1628 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DataStructs/__init__.py -rw-r--r-- root/root 953236 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/DataStructs/cDataStructs.cpython-37m-arm-linux-gnueabihf.so drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Dbase/ -rw-r--r-- root/root 7972 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Dbase/DbConnection.py -rw-r--r-- root/root 5758 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Dbase/DbInfo.py -rw-r--r-- root/root 2146 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Dbase/DbModule.py -rw-r--r-- root/root 7307 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Dbase/DbReport.py -rw-r--r-- root/root 6092 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Dbase/DbResultSet.py -rw-r--r-- root/root 14536 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Dbase/DbUtils.py -rw-r--r-- root/root 7592 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Dbase/StorageUtils.py -rw-r--r-- root/root 340 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Dbase/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/DistanceGeometry/ -rw-r--r-- root/root 54912 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/DistanceGeometry/DistGeom.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 46 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/DistanceGeometry/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ForceField/ -rw-r--r-- root/root 44 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ForceField/__init__.py -rw-r--r-- root/root 224564 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ForceField/rdForceField.cpython-37m-arm-linux-gnueabihf.so drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Geometry/ -rw-r--r-- root/root 109 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Geometry/__init__.py -rw-r--r-- root/root 370084 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Geometry/rdGeometry.cpython-37m-arm-linux-gnueabihf.so drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/ -rw-r--r-- root/root 9361 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/AnalyzeComposite.py -rw-r--r-- root/root 35858 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/BuildComposite.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/ -rw-r--r-- root/root 3502 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/Butina.py -rw-r--r-- root/root 4413 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/ClusterUtils.py -rw-r--r-- root/root 15377 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/ClusterVis.py -rw-r--r-- root/root 22132 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/Clustering.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 8567 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/Clusters.py -rw-r--r-- root/root 3184 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/Murtagh.py -rw-r--r-- root/root 3255 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/Resemblance.py -rw-r--r-- root/root 675 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/Standardize.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/__init__.py -rw-r--r-- root/root 890 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Cluster/murtagh_test.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/Composite/ -rw-r--r-- root/root 2591 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Composite/AdjustComposite.py -rw-r--r-- root/root 4921 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Composite/BayesComposite.py -rw-r--r-- root/root 20577 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Composite/Composite.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Composite/__init__.py -rw-r--r-- root/root 6898 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/CompositeRun.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/Data/ -rw-r--r-- root/root 19128 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Data/DataUtils.py -rw-r--r-- root/root 1655 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Data/FindQuantBounds.py -rw-r--r-- root/root 11150 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Data/MLData.py -rw-r--r-- root/root 11308 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Data/Quantize.py -rw-r--r-- root/root 8813 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Data/SplitData.py -rw-r--r-- root/root 6719 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Data/Stats.py -rw-r--r-- root/root 877 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Data/Transforms.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Data/__init__.py -rw-r--r-- root/root 26252 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/Data/cQuantize.cpython-37m-arm-linux-gnueabihf.so drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/ -rw-r--r-- root/root 13414 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/BuildQuantTree.py -rw-r--r-- root/root 7533 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/BuildSigTree.py -rw-r--r-- root/root 6944 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/CrossValidate.py -rw-r--r-- root/root 3365 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/DecTree.py -rw-r--r-- root/root 7869 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/Forest.py -rw-r--r-- root/root 6700 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/ID3.py -rw-r--r-- root/root 9403 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/PruneTree.py -rw-r--r-- root/root 2518 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/QuantTree.py -rw-r--r-- root/root 1772 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/SigTree.py -rw-r--r-- root/root 7523 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/Tree.py -rw-r--r-- root/root 775 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/TreeUtils.py -rw-r--r-- root/root 6394 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/TreeVis.py -rw-r--r-- root/root 149 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/__init__.py -rw-r--r-- root/root 1003 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/DecTree/randomtest.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/Descriptors/ -rw-r--r-- root/root 14136 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Descriptors/CompoundDescriptors.py -rw-r--r-- root/root 1553 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Descriptors/Descriptors.py -rw-r--r-- root/root 3246 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Descriptors/MoleculeDescriptors.py -rw-r--r-- root/root 12436 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Descriptors/Parser.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Descriptors/__init__.py -rw-r--r-- root/root 16240 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/EnrichPlot.py -rw-r--r-- root/root 19738 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/GrowComposite.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/ -rw-r--r-- root/root 2321 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/BitClusterer.py -rw-r--r-- root/root 5487 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/BitRank.py -rw-r--r-- root/root 89 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/__init__.py -rw-r--r-- root/root 2818 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/entropy.py -rw-r--r-- root/root 108520 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/rdInfoTheory.cpython-37m-arm-linux-gnueabihf.so drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/KNN/ -rw-r--r-- root/root 3874 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/KNN/CrossValidate.py -rw-r--r-- root/root 1427 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/KNN/DistFunctions.py -rw-r--r-- root/root 1992 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNClassificationModel.py -rw-r--r-- root/root 2233 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNModel.py -rw-r--r-- root/root 1998 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNRegressionModel.py -rw-r--r-- root/root 92 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/KNN/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/MLUtils/ -rw-r--r-- root/root 6144 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/MLUtils/VoteImg.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/MLUtils/__init__.py -rw-r--r-- root/root 776 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/MatOps.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/ -rw-r--r-- root/root 4936 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/PackageUtils.py -rw-r--r-- root/root 2513 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/Packager.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/ -rw-r--r-- root/root 10125 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/ClassificationModel.py -rw-r--r-- root/root 2660 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/CrossValidate.py -rw-r--r-- root/root 124 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/Neural/ -rw-r--r-- root/root 1413 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Neural/ActFuncs.py -rw-r--r-- root/root 3924 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Neural/CrossValidate.py -rw-r--r-- root/root 4169 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Neural/NetNode.py -rw-r--r-- root/root 7342 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Neural/Network.py -rw-r--r-- root/root 7994 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Neural/Trainers.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Neural/__init__.py -rw-r--r-- root/root 617 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Neural/architecture.txt drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/SLT/ -rw-r--r-- root/root 3059 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/SLT/Risk.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/SLT/__init__.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/ML/Scoring/ -rw-r--r-- root/root 6384 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Scoring/Scoring.py -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/Scoring/__init__.py -rw-r--r-- root/root 55093 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/ScreenComposite.py -rw-r--r-- root/root 340 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/__init__.py -rw-r--r-- root/root 2496 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/ML/files.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Numerics/ -rw-r--r-- root/root 91 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/Numerics/__init__.py -rw-r--r-- root/root 50744 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/Numerics/rdAlignment.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 2146 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/RDConfig.py -rw-r--r-- root/root 1622 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/RDLogger.py -rw-r--r-- root/root 436 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/RDPaths.py -rw-r--r-- root/root 480 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/RDRandom.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/SimDivFilters/ -rw-r--r-- root/root 7306 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/SimDivFilters/SimilarityPickers.py -rw-r--r-- root/root 252 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/SimDivFilters/__init__.py -rw-r--r-- root/root 108592 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/SimDivFilters/rdSimDivPickers.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 9067 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/TestRunner.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/VLib/ -rw-r--r-- root/root 2932 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/Filter.py -rw-r--r-- root/root 4826 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/Node.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/ -rw-r--r-- root/root 1681 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/DbMolSupply.py -rw-r--r-- root/root 5730 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/DbPickleSupplier.py -rw-r--r-- root/root 1443 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SDSupply.py -rw-r--r-- root/root 2668 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmartsMolFilter.py -rw-r--r-- root/root 3877 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmartsRemover.py -rw-r--r-- root/root 1497 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesDupeFilter.py -rw-r--r-- root/root 2131 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesOutput.py -rw-r--r-- root/root 1967 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesSupply.py -rw-r--r-- root/root 95 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/__init__.py -rw-r--r-- root/root 2008 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/demo.py -rw-r--r-- root/root 1739 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/Output.py -rw-r--r-- root/root 1583 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/Supply.py -rw-r--r-- root/root 2129 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/Transform.py -rw-r--r-- root/root 13 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/VLib/__init__.py -rw-r--r-- root/root 109 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/__init__.py -rw-r--r-- root/root 177 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/_py2_pickle.py -rw-r--r-- root/root 669044 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/rdBase.cpython-37m-arm-linux-gnueabihf.so -rw-r--r-- root/root 23854 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/six.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/PDF/ -rw-r--r-- root/root 22 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PDF/__init__.py -rw-r--r-- root/root 15575 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfdoc.py -rw-r--r-- root/root 38282 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfgen.py -rw-r--r-- root/root 2413 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfgeom.py -rw-r--r-- root/root 20538 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfmetrics.py -rw-r--r-- root/root 10525 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfutils.py -rw-r--r-- root/root 25105 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PDF/pidPDF.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/ -rw-r--r-- root/root 32 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/__init__.py -rw-r--r-- root/root 15699 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pidPIL.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/ -rw-r--r-- root/root 990 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-10.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-10.pil -rw-r--r-- root/root 1254 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-12.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-12.pil -rw-r--r-- root/root 1540 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-14.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-14.pil -rw-r--r-- root/root 1960 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-18.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-18.pil -rw-r--r-- root/root 2829 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-24.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-24.pil -rw-r--r-- root/root 731 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pbm -rw-r--r-- root/root 5142 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pil -rw-r--r-- root/root 5142 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pil.1 -rw-r--r-- root/root 1087 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pil -rw-r--r-- root/root 1370 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pil -rw-r--r-- root/root 1667 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pil -rw-r--r-- root/root 2336 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pil -rw-r--r-- root/root 3316 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pil -rw-r--r-- root/root 733 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pbm -rw-r--r-- root/root 5142 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pil -rw-r--r-- root/root 1060 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pil -rw-r--r-- root/root 1216 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pil -rw-r--r-- root/root 1566 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pil -rw-r--r-- root/root 2324 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pil -rw-r--r-- root/root 3465 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pil -rw-r--r-- root/root 800 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pbm -rw-r--r-- root/root 5142 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pil -rw-r--r-- root/root 1141 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pil -rw-r--r-- root/root 1399 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pil -rw-r--r-- root/root 1698 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pil -rw-r--r-- root/root 2504 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pil -rw-r--r-- root/root 3575 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pil -rw-r--r-- root/root 823 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pbm -rw-r--r-- root/root 5142 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pil -rw-r--r-- root/root 41265 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/metrics.dat -rw-r--r-- root/root 213 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/removemedium.py -rw-r--r-- root/root 1075 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-10.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-10.pil -rw-r--r-- root/root 1386 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-12.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-12.pil -rw-r--r-- root/root 1641 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-14.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-14.pil -rw-r--r-- root/root 2361 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-18.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-18.pil -rw-r--r-- root/root 3404 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-24.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-24.pil -rw-r--r-- root/root 813 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-8.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-8.pil -rw-r--r-- root/root 1002 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-10.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-10.pil -rw-r--r-- root/root 1325 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-12.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-12.pil -rw-r--r-- root/root 1588 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-14.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-14.pil -rw-r--r-- root/root 2305 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-18.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-18.pil -rw-r--r-- root/root 3313 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-24.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-24.pil -rw-r--r-- root/root 703 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-8.pbm -rw-r--r-- root/root 5142 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-8.pil -rw-r--r-- root/root 1101 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pil -rw-r--r-- root/root 1418 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pil -rw-r--r-- root/root 1740 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pil -rw-r--r-- root/root 2495 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pil -rw-r--r-- root/root 3605 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pbm -rw-r--r-- root/root 5143 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pil -rw-r--r-- root/root 764 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pbm -rw-r--r-- root/root 5142 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pil drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/PS/ -rw-r--r-- root/root 31 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PS/__init__.py -rw-r--r-- root/root 334 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PS/fontinfo.py -rw-r--r-- root/root 18888 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PS/latin1MetricsCache.py -rw-r--r-- root/root 35403 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PS/pidPS.py -rw-r--r-- root/root 17605 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/PS/psmetrics.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/Pyart/ -rw-r--r-- root/root 3678 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/Pyart/Fontmapping.py -rw-r--r-- root/root 40 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/Pyart/__init__.py -rw-r--r-- root/root 8279 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/Pyart/pidPyart.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/Qt/ -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/Qt/__init__.py -rw-r--r-- root/root 11286 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/Qt/pidQt.py -rw-r--r-- root/root 10747 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/Qt/pidQt4.py -rw-r--r-- root/root 1939 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/README drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/ReportLab/ -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/ReportLab/__init__.py -rw-r--r-- root/root 10481 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/ReportLab/pidReportLab.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/SVG/ -rw-r--r-- root/root 44 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/SVG/__init__.py -rw-r--r-- root/root 23751 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/SVG/pidSVG.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/TK/ -rw-r--r-- root/root 20 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/TK/__init__.py -rw-r--r-- root/root 16441 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/TK/pidTK.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/WX/ -rw-r--r-- root/root 20 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/WX/__init__.py -rw-r--r-- root/root 12749 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/WX/pidWX.py -rw-r--r-- root/root 8789 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/WX/pidWxDc.py -rw-r--r-- root/root 154 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/__init__.py -rw-r--r-- root/root 7117 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/colors.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/examples/ -rw-r--r-- root/root 1271 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/examples/formatted-strings.py -rw-r--r-- root/root 2610 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/examples/tkCanvas-with-scrollbars.py -rw-r--r-- root/root 2607 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/examples/tkCanvasPIL-with-scrollbars.py -rw-r--r-- root/root 600 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/pagesizes.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/patches/ -rw-r--r-- root/root 1197 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/patches/Imaging-1.1-fixplugin-path -rw-r--r-- root/root 854 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/patches/Imaging-1.1.1.diff -rw-r--r-- root/root 22670 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/pid.py -rw-r--r-- root/root 18011 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/stringformat.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/tests/ -rw-r--r-- root/root 26 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/tests/__init__.py -rw-r--r-- root/root 15513 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/tests/pidtest.py -rw-r--r-- root/root 431 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/tests/pstests.py -rw-r--r-- root/root 967 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/tests/testallps.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/sping/util/ -rw-r--r-- root/root 13640 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/util/HTMLPiddler.py -rw-r--r-- root/root 16 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/util/__init__.py -rw-r--r-- root/root 390 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/sping/utils.py drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/lib/python3/dist-packages/rdkit/utils/ -rw-r--r-- root/root 2770 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/12h.gif -rw-r--r-- root/root 0 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/__init__.py -rw-r--r-- root/root 1740 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/cactvs.py -rw-r--r-- root/root 11800 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/chemdraw.py -rw-r--r-- root/root 2477 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/chemdraw_qax.py -rw-r--r-- root/root 4901 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/chemutils.py -rw-r--r-- root/root 2199 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/comhack.py -rw-r--r-- root/root 1003 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/fileutils.py -rw-r--r-- root/root 1189 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/listutils.py -rw-r--r-- root/root 113 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/retest.txt -rw-r--r-- root/root 1835 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/spiral.py -rw-r--r-- root/root 16086 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/test1.gif -rw-r--r-- root/root 11626 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/test2.gif -rw-r--r-- root/root 6682 2019-04-08 18:44 ./usr/lib/python3/dist-packages/rdkit/utils/test3.gif drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-12-09 13:41 ./usr/share/doc/python3-rdkit/ -rw-r--r-- root/root 225 2019-08-20 05:11 ./usr/share/doc/python3-rdkit/TODO.Debian lrwxrwxrwx root/root 0 2019-12-09 13:41 ./usr/share/doc/python3-rdkit/changelog.Debian.gz -> ../librdkit1/changelog.Debian.gz -rw-r--r-- root/root 6705 2019-08-20 05:11 ./usr/share/doc/python3-rdkit/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: armhf Build-Space: 3258240 Build-Time: 4647 Distribution: focal Host Architecture: armhf Install-Time: 204 Job: rdkit_201903.1-2ubuntu1.dsc Machine Architecture: arm64 Package: rdkit Package-Time: 4860 Source-Version: 201903.1-2ubuntu1 Space: 3258240 Status: successful Version: 201903.1-2ubuntu1 -------------------------------------------------------------------------------- Finished at 20191209-2135 Build needed 01:21:00, 3258240k disc space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18226031 Scanning for processes to kill in build PACKAGEBUILD-18226031