Warning: Permanently added '3.210.204.253' (ECDSA) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 1907510 --chroot fedora-rawhide-x86_64 --detached Version: 0.45 Task: {'build_id': 1907510, 'buildroot_pkgs': [], 'chroot': 'fedora-rawhide-x86_64', 'enable_net': False, 'git_hash': '7ece35a86dc494f9ad8e8940fe48c15c5df3a587', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/panovotn/pg13-deps-test/rdkit.git', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'rdkit', 'package_version': '2019.03.3-13', 'project_dirname': 'pg13-deps-test', 'project_name': 'pg13-deps-test', 'project_owner': 'panovotn', 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/panovotn/pg13-deps-test/fedora-rawhide-x86_64/', 'id': 'copr_base', 'name': 'Copr repository'}], 'sandbox': 'panovotn/pg13-deps-test--panovotn', 'source_json': {}, 'source_type': None, 'submitter': 'panovotn', 'task_id': '1907510-fedora-rawhide-x86_64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/panovotn/pg13-deps-test/rdkit.git /tmp/copr-rpmbuild-osq25n8d/obtain-sources/rdkit --depth 500 --no-single-branch cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/panovotn/pg13-deps-test/rdkit.git', '/tmp/copr-rpmbuild-osq25n8d/obtain-sources/rdkit', '--depth', '500', '--no-single-branch'] cwd: . rc: 0 stdout: stderr: Cloning into '/tmp/copr-rpmbuild-osq25n8d/obtain-sources/rdkit'... Running: git checkout 7ece35a86dc494f9ad8e8940fe48c15c5df3a587 cmd: ['git', 'checkout', '7ece35a86dc494f9ad8e8940fe48c15c5df3a587'] cwd: /tmp/copr-rpmbuild-osq25n8d/obtain-sources/rdkit rc: 0 stdout: stderr: Note: switching to '7ece35a86dc494f9ad8e8940fe48c15c5df3a587'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by switching back to a branch. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -c with the switch command. Example: git switch -c Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false HEAD is now at 7ece35a automatic import of rdkit Running: copr-distgit-client sources cmd: ['copr-distgit-client', 'sources'] cwd: /tmp/copr-rpmbuild-osq25n8d/obtain-sources/rdkit rc: 0 /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated stdout: stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD INFO: Reading stdout from command: git rev-parse HEAD INFO: Reading sources specification file: sources INFO: Downloading Release_2019_03_3.tar.gz INFO: Calling: curl -H Pragma: -o Release_2019_03_3.tar.gz --location --remote-time --show-error --fail https://copr-dist-git.fedorainfracloud.org/repo/pkgs/panovotn/pg13-deps-test/rdkit/Release_2019_03_3.tar.gz/md5/a2fc629cde802028516935658717f548/Release_2019_03_3.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 54.9M 100 54.9M 0 0 38.3M 0 0:00:01 0:00:01 --:--:-- 38.3M INFO: Reading stdout from command: md5sum Release_2019_03_3.tar.gz Running (timeout=18000): unbuffer mock --buildsrpm --spec /tmp/copr-rpmbuild-osq25n8d/obtain-sources/rdkit/rdkit.spec --sources /tmp/copr-rpmbuild-osq25n8d/obtain-sources/rdkit --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1611737311.604998 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 2.9 starting (python version = 3.9.1, NVR = mock-2.9-1.fc33)... Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/tmp/copr-rpmbuild-osq25n8d/obtain-sources/rdkit/rdkit.spec) Config(fedora-rawhide-x86_64) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1611737311.604998/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 2.9 INFO: Mock Version: 2.9 Start(bootstrap): dnf install No matches found for the following disable plugin patterns: local, spacewalk Copr repository 6.8 MB/s | 732 kB 00:00 fedora 22 MB/s | 73 MB 00:03 Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing: dnf  noarch 4.5.2-1.fc34 fedora 445 k dnf-plugins-core  noarch 4.0.18-1.fc34 fedora 34 k Installing dependencies: alternatives  x86_64 1.15-1.fc34 fedora 35 k audit-libs  x86_64 3.0-1.fc34 fedora 113 k basesystem  noarch 11-10.fc33 fedora 6.8 k bash  x86_64 5.1.0-1.fc34 fedora 1.7 M bzip2-libs  x86_64 1.0.8-4.fc33 fedora 40 k ca-certificates  noarch 2020.2.41-6.fc34 fedora 353 k coreutils  x86_64 8.32-15.fc34 fedora 1.1 M coreutils-common  x86_64 8.32-15.fc34 fedora 2.0 M crypto-policies  noarch 20210118-1.gitb21c811.fc34 fedora 76 k curl  x86_64 7.74.0-2.fc34 fedora 300 k cyrus-sasl-lib  x86_64 2.1.27-7.fc34 copr_base 101 k dnf-data  noarch 4.5.2-1.fc34 fedora 46 k elfutils-default-yama-scope  noarch 0.182-2.fc34 fedora 16 k elfutils-libelf  x86_64 0.182-2.fc34 fedora 193 k elfutils-libs  x86_64 0.182-2.fc34 fedora 265 k expat  x86_64 2.2.10-1.fc34 fedora 104 k fedora-gpg-keys  noarch 34-0.8 fedora 107 k fedora-release  noarch 34-0.10 fedora 11 k fedora-release-common  noarch 34-0.10 fedora 20 k fedora-release-identity-basic noarch 34-0.10 fedora 12 k fedora-repos  noarch 34-0.8 fedora 11 k fedora-repos-rawhide  noarch 34-0.8 fedora 10 k file-libs  x86_64 5.39-4.fc34 fedora 591 k filesystem  x86_64 3.14-4.fc34 fedora 1.1 M gawk  x86_64 5.1.0-2.fc33 fedora 1.0 M gdbm-libs  x86_64 1:1.19-1.fc34 fedora 54 k glib2  x86_64 2.67.1-2.fc34 fedora 2.7 M glibc  x86_64 2.32.9000-26.fc34 fedora 3.5 M glibc-common  x86_64 2.32.9000-26.fc34 fedora 2.1 M glibc-minimal-langpack  x86_64 2.32.9000-26.fc34 fedora 110 k gmp  x86_64 1:6.2.0-5.fc34 fedora 320 k gnupg2  x86_64 2.2.27-1.fc34 fedora 2.3 M gnutls  x86_64 3.6.15-2.fc34 fedora 925 k gpgme  x86_64 1.14.0-2.fc33 fedora 205 k grep  x86_64 3.6-1.fc34 fedora 260 k ima-evm-utils  x86_64 1.3.2-1.fc34 fedora 62 k json-c  x86_64 0.14-7.fc33 fedora 41 k keyutils-libs  x86_64 1.6.1-1.fc34 fedora 31 k krb5-libs  x86_64 1.19-0.beta2.1.fc34 fedora 734 k libacl  x86_64 2.2.53-9.fc34 fedora 23 k libarchive  x86_64 3.5.1-1.fc34 fedora 391 k libassuan  x86_64 2.5.4-1.fc34 fedora 68 k libattr  x86_64 2.4.48-10.fc33 fedora 18 k libblkid  x86_64 2.36.1-3.fc34 fedora 100 k libbrotli  x86_64 1.0.9-3.fc34 fedora 322 k libcap  x86_64 2.46-1.fc34 fedora 65 k libcap-ng  x86_64 0.8.2-1.fc34 fedora 32 k libcom_err  x86_64 1.45.6-4.fc33 fedora 27 k libcomps  x86_64 0.1.15-5.fc33 fedora 79 k libcurl  x86_64 7.74.0-2.fc34 fedora 285 k libdb  x86_64 5.3.28-45.fc34 fedora 760 k libdnf  x86_64 0.55.2-1.fc34 fedora 624 k libffi  x86_64 3.1-27.fc34 fedora 33 k libgcc  x86_64 11.0.0-0.16.fc34 fedora 90 k libgcrypt  x86_64 1.8.7-1.fc34 fedora 476 k libgomp  x86_64 11.0.0-0.16.fc34 fedora 260 k libgpg-error  x86_64 1.41-1.fc34 fedora 212 k libidn2  x86_64 2.3.0-4.fc34 fedora 104 k libksba  x86_64 1.5.0-1.fc34 fedora 152 k libmetalink  x86_64 0.1.3-13.fc33 fedora 31 k libmodulemd  x86_64 2.12.0-1.fc34 fedora 235 k libmount  x86_64 2.36.1-3.fc34 fedora 131 k libnghttp2  x86_64 1.42.0-1.fc34 fedora 76 k libnsl2  x86_64 1.3.0-1.fc34 fedora 58 k libpsl  x86_64 0.21.1-2.fc33 fedora 61 k librepo  x86_64 1.12.1-1.fc34 fedora 97 k libreport-filesystem  noarch 2.14.0-15.fc34 fedora 15 k libselinux  x86_64 3.2-0.rc1.1.fc34 fedora 84 k libsemanage  x86_64 3.2-0.rc1.1.fc34 fedora 116 k libsepol  x86_64 3.2-0.rc1.1.fc34 fedora 286 k libsigsegv  x86_64 2.13-1.fc34 fedora 27 k libsmartcols  x86_64 2.36.1-3.fc34 fedora 59 k libsolv  x86_64 0.7.17-2.fc34 fedora 392 k libssh  x86_64 0.9.5-1.fc34 fedora 209 k libssh-config  noarch 0.9.5-1.fc34 fedora 11 k libstdc++  x86_64 11.0.0-0.16.fc34 fedora 694 k libtasn1  x86_64 4.16.0-3.fc33 fedora 75 k libtirpc  x86_64 1.3.1-0.fc34 fedora 95 k libunistring  x86_64 0.9.10-9.fc33 fedora 516 k libusbx  x86_64 1.0.23-2.fc33 fedora 70 k libuuid  x86_64 2.36.1-3.fc34 fedora 24 k libverto  x86_64 0.3.1-2.fc34 fedora 21 k libxcrypt  x86_64 4.4.17-1.fc34 fedora 121 k libxml2  x86_64 2.9.10-9.fc34 fedora 744 k libyaml  x86_64 0.2.5-4.fc34 fedora 61 k libzstd  x86_64 1.4.7-1.fc34 fedora 340 k lua-libs  x86_64 5.4.2-1.fc34 fedora 216 k lz4-libs  x86_64 1.9.3-1.fc34 fedora 67 k mpfr  x86_64 4.1.0-2.fc33 fedora 1.4 M ncurses-base  noarch 6.2-3.20200222.fc33 fedora 60 k ncurses-libs  x86_64 6.2-3.20200222.fc33 fedora 329 k nettle  x86_64 3.7-1.fc34 fedora 396 k npth  x86_64 1.6-5.fc33 fedora 25 k openldap  x86_64 2.4.57-1.fc34 fedora 261 k openssl-libs  x86_64 1:1.1.1i-1.fc34 fedora 1.4 M p11-kit  x86_64 0.23.22-1.fc34 fedora 369 k p11-kit-trust  x86_64 0.23.22-1.fc34 fedora 141 k pcre  x86_64 8.44-3.fc34 fedora 200 k pcre2  x86_64 10.36-2.fc34 fedora 234 k pcre2-syntax  noarch 10.36-2.fc34 fedora 143 k popt  x86_64 1.18-2.fc34 fedora 59 k publicsuffix-list-dafsa  noarch 20190417-4.fc33 fedora 55 k python-pip-wheel  noarch 20.3.3-3.fc34 fedora 1.3 M python-setuptools-wheel  noarch 51.1.2-1.fc34 fedora 471 k python3  x86_64 3.9.1-3.fc34 fedora 28 k python3-dateutil  noarch 1:2.8.1-2.fc33 fedora 289 k python3-distro  noarch 1.5.0-4.fc33 fedora 36 k python3-dnf  noarch 4.5.2-1.fc34 fedora 413 k python3-dnf-plugins-core  noarch 4.0.18-1.fc34 fedora 191 k python3-gpg  x86_64 1.14.0-2.fc33 fedora 268 k python3-hawkey  x86_64 0.55.2-1.fc34 fedora 113 k python3-libcomps  x86_64 0.1.15-5.fc33 fedora 51 k python3-libdnf  x86_64 0.55.2-1.fc34 fedora 779 k python3-libs  x86_64 3.9.1-3.fc34 fedora 7.7 M python3-rpm  x86_64 4.16.1.2-4.fc34 fedora 99 k python3-setuptools  noarch 51.1.2-1.fc34 fedora 843 k python3-six  noarch 1.15.0-3.fc34 fedora 37 k readline  x86_64 8.1-1.fc34 fedora 216 k rpm  x86_64 4.16.1.2-4.fc34 fedora 527 k rpm-build-libs  x86_64 4.16.1.2-4.fc34 fedora 97 k rpm-libs  x86_64 4.16.1.2-4.fc34 fedora 326 k rpm-sign-libs  x86_64 4.16.1.2-4.fc34 fedora 27 k sed  x86_64 4.8-6.fc34 fedora 298 k setup  noarch 2.13.7-2.fc33 fedora 142 k shadow-utils  x86_64 2:4.8.1-6.fc34 fedora 1.2 M sqlite-libs  x86_64 3.34.0-1.fc34 fedora 626 k systemd-libs  x86_64 247.2-1.fc34 fedora 546 k tpm2-tss  x86_64 3.0.3-1.fc34 fedora 588 k tzdata  noarch 2020f-1.fc34 fedora 432 k xz-libs  x86_64 5.2.5-4.fc34 fedora 91 k zchunk-libs  x86_64 1.1.9-1.fc34 fedora 46 k zlib  x86_64 1.2.11-23.fc34 fedora 92 k Transaction Summary ================================================================================ Install 134 Packages Total download size: 55 M Installed size: 191 M Downloading Packages: (1/134): cyrus-sasl-lib-2.1.27-7.fc34.x86_64.rp 6.1 MB/s | 101 kB 00:00 (2/134): basesystem-11-10.fc33.noarch.rpm 378 kB/s | 6.8 kB 00:00 (3/134): alternatives-1.15-1.fc34.x86_64.rpm 875 kB/s | 35 kB 00:00 (4/134): audit-libs-3.0-1.fc34.x86_64.rpm 1.9 MB/s | 113 kB 00:00 (5/134): bzip2-libs-1.0.8-4.fc33.x86_64.rpm 2.1 MB/s | 40 kB 00:00 (6/134): ca-certificates-2020.2.41-6.fc34.noarc 11 MB/s | 353 kB 00:00 (7/134): coreutils-8.32-15.fc34.x86_64.rpm 19 MB/s | 1.1 MB 00:00 (8/134): bash-5.1.0-1.fc34.x86_64.rpm 16 MB/s | 1.7 MB 00:00 (9/134): crypto-policies-20210118-1.gitb21c811. 4.1 MB/s | 76 kB 00:00 (10/134): coreutils-common-8.32-15.fc34.x86_64. 29 MB/s | 2.0 MB 00:00 (11/134): curl-7.74.0-2.fc34.x86_64.rpm 12 MB/s | 300 kB 00:00 (12/134): dnf-4.5.2-1.fc34.noarch.rpm 16 MB/s | 445 kB 00:00 (13/134): dnf-data-4.5.2-1.fc34.noarch.rpm 4.6 MB/s | 46 kB 00:00 (14/134): dnf-plugins-core-4.0.18-1.fc34.noarch 3.4 MB/s | 34 kB 00:00 (15/134): elfutils-default-yama-scope-0.182-2.f 1.7 MB/s | 16 kB 00:00 (16/134): elfutils-libelf-0.182-2.fc34.x86_64.r 16 MB/s | 193 kB 00:00 (17/134): elfutils-libs-0.182-2.fc34.x86_64.rpm 19 MB/s | 265 kB 00:00 (18/134): expat-2.2.10-1.fc34.x86_64.rpm 8.5 MB/s | 104 kB 00:00 (19/134): fedora-gpg-keys-34-0.8.noarch.rpm 9.9 MB/s | 107 kB 00:00 (20/134): fedora-release-34-0.10.noarch.rpm 1.2 MB/s | 11 kB 00:00 (21/134): fedora-release-common-34-0.10.noarch. 2.1 MB/s | 20 kB 00:00 (22/134): fedora-release-identity-basic-34-0.10 1.2 MB/s | 12 kB 00:00 (23/134): fedora-repos-34-0.8.noarch.rpm 1.1 MB/s | 11 kB 00:00 (24/134): fedora-repos-rawhide-34-0.8.noarch.rp 1.1 MB/s | 10 kB 00:00 (25/134): file-libs-5.39-4.fc34.x86_64.rpm 28 MB/s | 591 kB 00:00 (26/134): filesystem-3.14-4.fc34.x86_64.rpm 33 MB/s | 1.1 MB 00:00 (27/134): gdbm-libs-1.19-1.fc34.x86_64.rpm 3.2 MB/s | 54 kB 00:00 (28/134): gawk-5.1.0-2.fc33.x86_64.rpm 27 MB/s | 1.0 MB 00:00 (29/134): glib2-2.67.1-2.fc34.x86_64.rpm 36 MB/s | 2.7 MB 00:00 (30/134): glibc-common-2.32.9000-26.fc34.x86_64 24 MB/s | 2.1 MB 00:00 (31/134): glibc-minimal-langpack-2.32.9000-26.f 5.7 MB/s | 110 kB 00:00 (32/134): glibc-2.32.9000-26.fc34.x86_64.rpm 28 MB/s | 3.5 MB 00:00 (33/134): gmp-6.2.0-5.fc34.x86_64.rpm 8.5 MB/s | 320 kB 00:00 (34/134): gpgme-1.14.0-2.fc33.x86_64.rpm 14 MB/s | 205 kB 00:00 (35/134): gnupg2-2.2.27-1.fc34.x86_64.rpm 37 MB/s | 2.3 MB 00:00 (36/134): gnutls-3.6.15-2.fc34.x86_64.rpm 26 MB/s | 925 kB 00:00 (37/134): grep-3.6-1.fc34.x86_64.rpm 13 MB/s | 260 kB 00:00 (38/134): ima-evm-utils-1.3.2-1.fc34.x86_64.rpm 6.0 MB/s | 62 kB 00:00 (39/134): json-c-0.14-7.fc33.x86_64.rpm 3.8 MB/s | 41 kB 00:00 (40/134): keyutils-libs-1.6.1-1.fc34.x86_64.rpm 3.2 MB/s | 31 kB 00:00 (41/134): libacl-2.2.53-9.fc34.x86_64.rpm 2.0 MB/s | 23 kB 00:00 (42/134): krb5-libs-1.19-0.beta2.1.fc34.x86_64. 34 MB/s | 734 kB 00:00 (43/134): libarchive-3.5.1-1.fc34.x86_64.rpm 21 MB/s | 391 kB 00:00 (44/134): libassuan-2.5.4-1.fc34.x86_64.rpm 6.6 MB/s | 68 kB 00:00 (45/134): libattr-2.4.48-10.fc33.x86_64.rpm 1.9 MB/s | 18 kB 00:00 (46/134): libblkid-2.36.1-3.fc34.x86_64.rpm 9.3 MB/s | 100 kB 00:00 (47/134): libbrotli-1.0.9-3.fc34.x86_64.rpm 22 MB/s | 322 kB 00:00 (48/134): libcap-2.46-1.fc34.x86_64.rpm 5.3 MB/s | 65 kB 00:00 (49/134): libcap-ng-0.8.2-1.fc34.x86_64.rpm 3.3 MB/s | 32 kB 00:00 (50/134): libcom_err-1.45.6-4.fc33.x86_64.rpm 2.8 MB/s | 27 kB 00:00 (51/134): libcomps-0.1.15-5.fc33.x86_64.rpm 7.6 MB/s | 79 kB 00:00 (52/134): libcurl-7.74.0-2.fc34.x86_64.rpm 22 MB/s | 285 kB 00:00 (53/134): libffi-3.1-27.fc34.x86_64.rpm 2.3 MB/s | 33 kB 00:00 (54/134): libdb-5.3.28-45.fc34.x86_64.rpm 30 MB/s | 760 kB 00:00 (55/134): libdnf-0.55.2-1.fc34.x86_64.rpm 23 MB/s | 624 kB 00:00 (56/134): libgcc-11.0.0-0.16.fc34.x86_64.rpm 8.5 MB/s | 90 kB 00:00 (57/134): libgcrypt-1.8.7-1.fc34.x86_64.rpm 28 MB/s | 476 kB 00:00 (58/134): libgomp-11.0.0-0.16.fc34.x86_64.rpm 15 MB/s | 260 kB 00:00 (59/134): libgpg-error-1.41-1.fc34.x86_64.rpm 14 MB/s | 212 kB 00:00 (60/134): libidn2-2.3.0-4.fc34.x86_64.rpm 9.6 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libssh-config-0.9.5-1.fc34.noarch.rpm 1.0 MB/s | 11 kB 00:00 (76/134): libssh-0.9.5-1.fc34.x86_64.rpm 13 MB/s | 209 kB 00:00 (77/134): libsolv-0.7.17-2.fc34.x86_64.rpm 20 MB/s | 392 kB 00:00 (78/134): libtasn1-4.16.0-3.fc33.x86_64.rpm 5.2 MB/s | 75 kB 00:00 (79/134): libtirpc-1.3.1-0.fc34.x86_64.rpm 6.7 MB/s | 95 kB 00:00 (80/134): libstdc++-11.0.0-0.16.fc34.x86_64.rpm 29 MB/s | 694 kB 00:00 (81/134): libusbx-1.0.23-2.fc33.x86_64.rpm 5.3 MB/s | 70 kB 00:00 (82/134): libuuid-2.36.1-3.fc34.x86_64.rpm 2.5 MB/s | 24 kB 00:00 (83/134): libunistring-0.9.10-9.fc33.x86_64.rpm 26 MB/s | 516 kB 00:00 (84/134): libverto-0.3.1-2.fc34.x86_64.rpm 2.2 MB/s | 21 kB 00:00 (85/134): libxcrypt-4.4.17-1.fc34.x86_64.rpm 11 MB/s | 121 kB 00:00 (86/134): libyaml-0.2.5-4.fc34.x86_64.rpm 5.1 MB/s | 61 kB 00:00 (87/134): libzstd-1.4.7-1.fc34.x86_64.rpm 23 MB/s | 340 kB 00:00 (88/134): libxml2-2.9.10-9.fc34.x86_64.rpm 28 MB/s | 744 kB 00:00 (89/134): lua-libs-5.4.2-1.fc34.x86_64.rpm 17 MB/s | 216 kB 00:00 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kB 00:00 (134/134): zlib-1.2.11-23.fc34.x86_64.rpm 8.8 MB/s | 92 kB 00:00 -------------------------------------------------------------------------------- Total 52 MB/s | 55 MB 00:01 warning: /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1611737311.604998/root/var/cache/dnf/fedora-2d95c80a1fa0a67d/packages/alternatives-1.15-1.fc34.x86_64.rpm: Header V4 RSA/SHA256 Signature, key ID 45719a39: NOKEY fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x45719A39: Userid : "Fedora (34) " Fingerprint: 8C5B A699 0BDB 26E1 9F2A 1A80 1161 AE69 4571 9A39 From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-34-primary Key imported successfully fedora 1.6 MB/s | 1.6 kB 00:00 GPG key at file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-34-primary (0x45719A39) is already installed fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x9570FF31: Userid : "Fedora (33) " Fingerprint: 963A 2BEB 0200 9608 FE67 EA42 49FD 7749 9570 FF31 From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-33-primary Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. 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gnupg2-2.2.27-1.fc34.x86_64 34/134 Verifying : gnutls-3.6.15-2.fc34.x86_64 35/134 Verifying : gpgme-1.14.0-2.fc33.x86_64 36/134 Verifying : grep-3.6-1.fc34.x86_64 37/134 Verifying : ima-evm-utils-1.3.2-1.fc34.x86_64 38/134 Verifying : json-c-0.14-7.fc33.x86_64 39/134 Verifying : keyutils-libs-1.6.1-1.fc34.x86_64 40/134 Verifying : krb5-libs-1.19-0.beta2.1.fc34.x86_64 41/134 Verifying : libacl-2.2.53-9.fc34.x86_64 42/134 Verifying : libarchive-3.5.1-1.fc34.x86_64 43/134 Verifying : libassuan-2.5.4-1.fc34.x86_64 44/134 Verifying : libattr-2.4.48-10.fc33.x86_64 45/134 Verifying : libblkid-2.36.1-3.fc34.x86_64 46/134 Verifying : libbrotli-1.0.9-3.fc34.x86_64 47/134 Verifying : libcap-2.46-1.fc34.x86_64 48/134 Verifying : libcap-ng-0.8.2-1.fc34.x86_64 49/134 Verifying : libcom_err-1.45.6-4.fc33.x86_64 50/134 Verifying : libcomps-0.1.15-5.fc33.x86_64 51/134 Verifying : libcurl-7.74.0-2.fc34.x86_64 52/134 Verifying : libdb-5.3.28-45.fc34.x86_64 53/134 Verifying : libdnf-0.55.2-1.fc34.x86_64 54/134 Verifying : libffi-3.1-27.fc34.x86_64 55/134 Verifying : libgcc-11.0.0-0.16.fc34.x86_64 56/134 Verifying : libgcrypt-1.8.7-1.fc34.x86_64 57/134 Verifying : libgomp-11.0.0-0.16.fc34.x86_64 58/134 Verifying : libgpg-error-1.41-1.fc34.x86_64 59/134 Verifying : libidn2-2.3.0-4.fc34.x86_64 60/134 Verifying : libksba-1.5.0-1.fc34.x86_64 61/134 Verifying : libmetalink-0.1.3-13.fc33.x86_64 62/134 Verifying : libmodulemd-2.12.0-1.fc34.x86_64 63/134 Verifying : libmount-2.36.1-3.fc34.x86_64 64/134 Verifying : libnghttp2-1.42.0-1.fc34.x86_64 65/134 Verifying : libnsl2-1.3.0-1.fc34.x86_64 66/134 Verifying : libpsl-0.21.1-2.fc33.x86_64 67/134 Verifying : librepo-1.12.1-1.fc34.x86_64 68/134 Verifying : libreport-filesystem-2.14.0-15.fc34.noarch 69/134 Verifying : libselinux-3.2-0.rc1.1.fc34.x86_64 70/134 Verifying : libsemanage-3.2-0.rc1.1.fc34.x86_64 71/134 Verifying : libsepol-3.2-0.rc1.1.fc34.x86_64 72/134 Verifying : libsigsegv-2.13-1.fc34.x86_64 73/134 Verifying : libsmartcols-2.36.1-3.fc34.x86_64 74/134 Verifying : libsolv-0.7.17-2.fc34.x86_64 75/134 Verifying : libssh-0.9.5-1.fc34.x86_64 76/134 Verifying : libssh-config-0.9.5-1.fc34.noarch 77/134 Verifying : libstdc++-11.0.0-0.16.fc34.x86_64 78/134 Verifying : libtasn1-4.16.0-3.fc33.x86_64 79/134 Verifying : libtirpc-1.3.1-0.fc34.x86_64 80/134 Verifying : libunistring-0.9.10-9.fc33.x86_64 81/134 Verifying : libusbx-1.0.23-2.fc33.x86_64 82/134 Verifying : libuuid-2.36.1-3.fc34.x86_64 83/134 Verifying : libverto-0.3.1-2.fc34.x86_64 84/134 Verifying : libxcrypt-4.4.17-1.fc34.x86_64 85/134 Verifying : libxml2-2.9.10-9.fc34.x86_64 86/134 Verifying : libyaml-0.2.5-4.fc34.x86_64 87/134 Verifying : libzstd-1.4.7-1.fc34.x86_64 88/134 Verifying : lua-libs-5.4.2-1.fc34.x86_64 89/134 Verifying : lz4-libs-1.9.3-1.fc34.x86_64 90/134 Verifying : mpfr-4.1.0-2.fc33.x86_64 91/134 Verifying : ncurses-base-6.2-3.20200222.fc33.noarch 92/134 Verifying : ncurses-libs-6.2-3.20200222.fc33.x86_64 93/134 Verifying : nettle-3.7-1.fc34.x86_64 94/134 Verifying : npth-1.6-5.fc33.x86_64 95/134 Verifying : openldap-2.4.57-1.fc34.x86_64 96/134 Verifying : openssl-libs-1:1.1.1i-1.fc34.x86_64 97/134 Verifying : p11-kit-0.23.22-1.fc34.x86_64 98/134 Verifying : p11-kit-trust-0.23.22-1.fc34.x86_64 99/134 Verifying : pcre-8.44-3.fc34.x86_64 100/134 Verifying : pcre2-10.36-2.fc34.x86_64 101/134 Verifying : pcre2-syntax-10.36-2.fc34.noarch 102/134 Verifying : popt-1.18-2.fc34.x86_64 103/134 Verifying : publicsuffix-list-dafsa-20190417-4.fc33.noarch 104/134 Verifying : python-pip-wheel-20.3.3-3.fc34.noarch 105/134 Verifying : python-setuptools-wheel-51.1.2-1.fc34.noarch 106/134 Verifying : python3-3.9.1-3.fc34.x86_64 107/134 Verifying : python3-dateutil-1:2.8.1-2.fc33.noarch 108/134 Verifying : python3-distro-1.5.0-4.fc33.noarch 109/134 Verifying : python3-dnf-4.5.2-1.fc34.noarch 110/134 Verifying : python3-dnf-plugins-core-4.0.18-1.fc34.noarch 111/134 Verifying : python3-gpg-1.14.0-2.fc33.x86_64 112/134 Verifying : python3-hawkey-0.55.2-1.fc34.x86_64 113/134 Verifying : python3-libcomps-0.1.15-5.fc33.x86_64 114/134 Verifying : python3-libdnf-0.55.2-1.fc34.x86_64 115/134 Verifying : python3-libs-3.9.1-3.fc34.x86_64 116/134 Verifying : python3-rpm-4.16.1.2-4.fc34.x86_64 117/134 Verifying : python3-setuptools-51.1.2-1.fc34.noarch 118/134 Verifying : python3-six-1.15.0-3.fc34.noarch 119/134 Verifying : readline-8.1-1.fc34.x86_64 120/134 Verifying : rpm-4.16.1.2-4.fc34.x86_64 121/134 Verifying : rpm-build-libs-4.16.1.2-4.fc34.x86_64 122/134 Verifying : rpm-libs-4.16.1.2-4.fc34.x86_64 123/134 Verifying : rpm-sign-libs-4.16.1.2-4.fc34.x86_64 124/134 Verifying : sed-4.8-6.fc34.x86_64 125/134 Verifying : setup-2.13.7-2.fc33.noarch 126/134 Verifying : shadow-utils-2:4.8.1-6.fc34.x86_64 127/134 Verifying : sqlite-libs-3.34.0-1.fc34.x86_64 128/134 Verifying : systemd-libs-247.2-1.fc34.x86_64 129/134 Verifying : tpm2-tss-3.0.3-1.fc34.x86_64 130/134 Verifying : tzdata-2020f-1.fc34.noarch 131/134 Verifying : xz-libs-5.2.5-4.fc34.x86_64 132/134 Verifying : zchunk-libs-1.1.9-1.fc34.x86_64 133/134 Verifying : zlib-1.2.11-23.fc34.x86_64 134/134 Installed: alternatives-1.15-1.fc34.x86_64 audit-libs-3.0-1.fc34.x86_64 basesystem-11-10.fc33.noarch bash-5.1.0-1.fc34.x86_64 bzip2-libs-1.0.8-4.fc33.x86_64 ca-certificates-2020.2.41-6.fc34.noarch coreutils-8.32-15.fc34.x86_64 coreutils-common-8.32-15.fc34.x86_64 crypto-policies-20210118-1.gitb21c811.fc34.noarch curl-7.74.0-2.fc34.x86_64 cyrus-sasl-lib-2.1.27-7.fc34.x86_64 dnf-4.5.2-1.fc34.noarch dnf-data-4.5.2-1.fc34.noarch dnf-plugins-core-4.0.18-1.fc34.noarch elfutils-default-yama-scope-0.182-2.fc34.noarch elfutils-libelf-0.182-2.fc34.x86_64 elfutils-libs-0.182-2.fc34.x86_64 expat-2.2.10-1.fc34.x86_64 fedora-gpg-keys-34-0.8.noarch fedora-release-34-0.10.noarch fedora-release-common-34-0.10.noarch fedora-release-identity-basic-34-0.10.noarch fedora-repos-34-0.8.noarch fedora-repos-rawhide-34-0.8.noarch file-libs-5.39-4.fc34.x86_64 filesystem-3.14-4.fc34.x86_64 gawk-5.1.0-2.fc33.x86_64 gdbm-libs-1:1.19-1.fc34.x86_64 glib2-2.67.1-2.fc34.x86_64 glibc-2.32.9000-26.fc34.x86_64 glibc-common-2.32.9000-26.fc34.x86_64 glibc-minimal-langpack-2.32.9000-26.fc34.x86_64 gmp-1:6.2.0-5.fc34.x86_64 gnupg2-2.2.27-1.fc34.x86_64 gnutls-3.6.15-2.fc34.x86_64 gpgme-1.14.0-2.fc33.x86_64 grep-3.6-1.fc34.x86_64 ima-evm-utils-1.3.2-1.fc34.x86_64 json-c-0.14-7.fc33.x86_64 keyutils-libs-1.6.1-1.fc34.x86_64 krb5-libs-1.19-0.beta2.1.fc34.x86_64 libacl-2.2.53-9.fc34.x86_64 libarchive-3.5.1-1.fc34.x86_64 libassuan-2.5.4-1.fc34.x86_64 libattr-2.4.48-10.fc33.x86_64 libblkid-2.36.1-3.fc34.x86_64 libbrotli-1.0.9-3.fc34.x86_64 libcap-2.46-1.fc34.x86_64 libcap-ng-0.8.2-1.fc34.x86_64 libcom_err-1.45.6-4.fc33.x86_64 libcomps-0.1.15-5.fc33.x86_64 libcurl-7.74.0-2.fc34.x86_64 libdb-5.3.28-45.fc34.x86_64 libdnf-0.55.2-1.fc34.x86_64 libffi-3.1-27.fc34.x86_64 libgcc-11.0.0-0.16.fc34.x86_64 libgcrypt-1.8.7-1.fc34.x86_64 libgomp-11.0.0-0.16.fc34.x86_64 libgpg-error-1.41-1.fc34.x86_64 libidn2-2.3.0-4.fc34.x86_64 libksba-1.5.0-1.fc34.x86_64 libmetalink-0.1.3-13.fc33.x86_64 libmodulemd-2.12.0-1.fc34.x86_64 libmount-2.36.1-3.fc34.x86_64 libnghttp2-1.42.0-1.fc34.x86_64 libnsl2-1.3.0-1.fc34.x86_64 libpsl-0.21.1-2.fc33.x86_64 librepo-1.12.1-1.fc34.x86_64 libreport-filesystem-2.14.0-15.fc34.noarch libselinux-3.2-0.rc1.1.fc34.x86_64 libsemanage-3.2-0.rc1.1.fc34.x86_64 libsepol-3.2-0.rc1.1.fc34.x86_64 libsigsegv-2.13-1.fc34.x86_64 libsmartcols-2.36.1-3.fc34.x86_64 libsolv-0.7.17-2.fc34.x86_64 libssh-0.9.5-1.fc34.x86_64 libssh-config-0.9.5-1.fc34.noarch libstdc++-11.0.0-0.16.fc34.x86_64 libtasn1-4.16.0-3.fc33.x86_64 libtirpc-1.3.1-0.fc34.x86_64 libunistring-0.9.10-9.fc33.x86_64 libusbx-1.0.23-2.fc33.x86_64 libuuid-2.36.1-3.fc34.x86_64 libverto-0.3.1-2.fc34.x86_64 libxcrypt-4.4.17-1.fc34.x86_64 libxml2-2.9.10-9.fc34.x86_64 libyaml-0.2.5-4.fc34.x86_64 libzstd-1.4.7-1.fc34.x86_64 lua-libs-5.4.2-1.fc34.x86_64 lz4-libs-1.9.3-1.fc34.x86_64 mpfr-4.1.0-2.fc33.x86_64 ncurses-base-6.2-3.20200222.fc33.noarch ncurses-libs-6.2-3.20200222.fc33.x86_64 nettle-3.7-1.fc34.x86_64 npth-1.6-5.fc33.x86_64 openldap-2.4.57-1.fc34.x86_64 openssl-libs-1:1.1.1i-1.fc34.x86_64 p11-kit-0.23.22-1.fc34.x86_64 p11-kit-trust-0.23.22-1.fc34.x86_64 pcre-8.44-3.fc34.x86_64 pcre2-10.36-2.fc34.x86_64 pcre2-syntax-10.36-2.fc34.noarch popt-1.18-2.fc34.x86_64 publicsuffix-list-dafsa-20190417-4.fc33.noarch python-pip-wheel-20.3.3-3.fc34.noarch python-setuptools-wheel-51.1.2-1.fc34.noarch python3-3.9.1-3.fc34.x86_64 python3-dateutil-1:2.8.1-2.fc33.noarch python3-distro-1.5.0-4.fc33.noarch python3-dnf-4.5.2-1.fc34.noarch python3-dnf-plugins-core-4.0.18-1.fc34.noarch python3-gpg-1.14.0-2.fc33.x86_64 python3-hawkey-0.55.2-1.fc34.x86_64 python3-libcomps-0.1.15-5.fc33.x86_64 python3-libdnf-0.55.2-1.fc34.x86_64 python3-libs-3.9.1-3.fc34.x86_64 python3-rpm-4.16.1.2-4.fc34.x86_64 python3-setuptools-51.1.2-1.fc34.noarch python3-six-1.15.0-3.fc34.noarch readline-8.1-1.fc34.x86_64 rpm-4.16.1.2-4.fc34.x86_64 rpm-build-libs-4.16.1.2-4.fc34.x86_64 rpm-libs-4.16.1.2-4.fc34.x86_64 rpm-sign-libs-4.16.1.2-4.fc34.x86_64 sed-4.8-6.fc34.x86_64 setup-2.13.7-2.fc33.noarch shadow-utils-2:4.8.1-6.fc34.x86_64 sqlite-libs-3.34.0-1.fc34.x86_64 systemd-libs-247.2-1.fc34.x86_64 tpm2-tss-3.0.3-1.fc34.x86_64 tzdata-2020f-1.fc34.noarch xz-libs-5.2.5-4.fc34.x86_64 zchunk-libs-1.1.9-1.fc34.x86_64 zlib-1.2.11-23.fc34.x86_64 Complete! Finish(bootstrap): dnf install Start(bootstrap): creating root cache Finish(bootstrap): creating root cache Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-1611737311.604998/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 2.9 INFO: Mock Version: 2.9 Start: dnf install No matches found for the following disable plugin patterns: local, spacewalk Copr repository 4.2 MB/s | 734 kB 00:00 fedora 21 MB/s | 73 MB 00:03 Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing group/module packages: bash  x86_64 5.1.0-1.fc34 fedora 1.7 M bzip2  x86_64 1.0.8-4.fc33 fedora 52 k coreutils  x86_64 8.32-15.fc34 fedora 1.1 M cpio  x86_64 2.13-8.fc33 fedora 273 k diffutils  x86_64 3.7-7.fc34 fedora 390 k fedora-release-common  noarch 34-0.10 fedora 20 k findutils  x86_64 1:4.8.0-1.fc34 fedora 545 k gawk  x86_64 5.1.0-2.fc33 fedora 1.0 M glibc-minimal-langpack  x86_64 2.32.9000-26.fc34 fedora 110 k grep  x86_64 3.6-1.fc34 fedora 260 k gzip  x86_64 1.10-3.fc33 fedora 152 k info  x86_64 6.7-8.fc33 fedora 228 k make  x86_64 1:4.3-2.fc33 fedora 539 k patch  x86_64 2.7.6-13.fc33 fedora 129 k redhat-rpm-config  noarch 180-1.fc34 fedora 71 k rpm-build  x86_64 4.16.1.2-4.fc34 fedora 107 k sed  x86_64 4.8-6.fc34 fedora 298 k shadow-utils  x86_64 2:4.8.1-6.fc34 fedora 1.2 M tar  x86_64 2:1.32-6.fc33 fedora 880 k unzip  x86_64 6.0-49.fc33 fedora 181 k util-linux  x86_64 2.36.1-3.fc34 fedora 2.5 M which  x86_64 2.21-20.fc33 fedora 41 k xz  x86_64 5.2.5-4.fc34 fedora 215 k Installing dependencies: alternatives  x86_64 1.15-1.fc34 fedora 35 k audit-libs  x86_64 3.0-1.fc34 fedora 113 k basesystem  noarch 11-10.fc33 fedora 6.8 k binutils  x86_64 2.35.1-24.fc34 fedora 5.3 M binutils-gold  x86_64 2.35.1-24.fc34 fedora 747 k bzip2-libs  x86_64 1.0.8-4.fc33 fedora 40 k ca-certificates  noarch 2020.2.41-6.fc34 fedora 353 k coreutils-common  x86_64 8.32-15.fc34 fedora 2.0 M cracklib  x86_64 2.9.6-24.fc33 fedora 83 k crypto-policies  noarch 20210118-1.gitb21c811.fc34 fedora 76 k curl  x86_64 7.74.0-2.fc34 fedora 300 k cyrus-sasl-lib  x86_64 2.1.27-7.fc34 copr_base 101 k dwz  x86_64 0.13-7.fc34 fedora 126 k ed  x86_64 1.14.2-9.fc33 fedora 75 k efi-srpm-macros  noarch 4-5.fc33 fedora 21 k elfutils  x86_64 0.182-2.fc34 fedora 525 k elfutils-debuginfod-client  x86_64 0.182-2.fc34 fedora 32 k elfutils-default-yama-scope  noarch 0.182-2.fc34 fedora 16 k elfutils-libelf  x86_64 0.182-2.fc34 fedora 193 k elfutils-libs  x86_64 0.182-2.fc34 fedora 265 k expat  x86_64 2.2.10-1.fc34 fedora 104 k fedora-gpg-keys  noarch 34-0.8 fedora 107 k fedora-release  noarch 34-0.10 fedora 11 k fedora-release-identity-basic noarch 34-0.10 fedora 12 k fedora-repos  noarch 34-0.8 fedora 11 k fedora-repos-rawhide  noarch 34-0.8 fedora 10 k file  x86_64 5.39-4.fc34 fedora 51 k file-libs  x86_64 5.39-4.fc34 fedora 591 k filesystem  x86_64 3.14-4.fc34 fedora 1.1 M fonts-srpm-macros  noarch 1:2.0.5-4.fc33 fedora 27 k fpc-srpm-macros  noarch 1.3-2.fc33 fedora 7.6 k gc  x86_64 8.0.4-4.fc33 fedora 104 k gdb-minimal  x86_64 10.1-2.fc34 fedora 3.6 M ghc-srpm-macros  noarch 1.5.0-3.fc33 fedora 7.7 k glibc  x86_64 2.32.9000-26.fc34 fedora 3.5 M glibc-common  x86_64 2.32.9000-26.fc34 fedora 2.1 M gmp  x86_64 1:6.2.0-5.fc34 fedora 320 k gnat-srpm-macros  noarch 4-12.fc33 fedora 8.2 k go-srpm-macros  noarch 3.0.9-1.fc34 fedora 25 k guile22  x86_64 2.2.7-1.fc34 fedora 6.5 M kernel-srpm-macros  noarch 1.0-3.fc33 fedora 7.2 k keyutils-libs  x86_64 1.6.1-1.fc34 fedora 31 k krb5-libs  x86_64 1.19-0.beta2.1.fc34 fedora 734 k libacl  x86_64 2.2.53-9.fc34 fedora 23 k libarchive  x86_64 3.5.1-1.fc34 fedora 391 k libattr  x86_64 2.4.48-10.fc33 fedora 18 k libblkid  x86_64 2.36.1-3.fc34 fedora 100 k libbrotli  x86_64 1.0.9-3.fc34 fedora 322 k libcap  x86_64 2.46-1.fc34 fedora 65 k libcap-ng  x86_64 0.8.2-1.fc34 fedora 32 k libcom_err  x86_64 1.45.6-4.fc33 fedora 27 k libcurl  x86_64 7.74.0-2.fc34 fedora 285 k libdb  x86_64 5.3.28-45.fc34 fedora 760 k libeconf  x86_64 0.3.8-4.fc33 fedora 24 k libfdisk  x86_64 2.36.1-3.fc34 fedora 151 k libffi  x86_64 3.1-27.fc34 fedora 33 k libgcc  x86_64 11.0.0-0.16.fc34 fedora 90 k libgcrypt  x86_64 1.8.7-1.fc34 fedora 476 k libgomp  x86_64 11.0.0-0.16.fc34 fedora 260 k libgpg-error  x86_64 1.41-1.fc34 fedora 212 k libidn2  x86_64 2.3.0-4.fc34 fedora 104 k libmetalink  x86_64 0.1.3-13.fc33 fedora 31 k libmount  x86_64 2.36.1-3.fc34 fedora 131 k libnghttp2  x86_64 1.42.0-1.fc34 fedora 76 k libnsl2  x86_64 1.3.0-1.fc34 fedora 58 k libpkgconf  x86_64 1.7.3-5.fc34 fedora 36 k libpsl  x86_64 0.21.1-2.fc33 fedora 61 k libpwquality  x86_64 1.4.4-1.fc34 fedora 104 k libselinux  x86_64 3.2-0.rc1.1.fc34 fedora 84 k libsemanage  x86_64 3.2-0.rc1.1.fc34 fedora 116 k libsepol  x86_64 3.2-0.rc1.1.fc34 fedora 286 k libsigsegv  x86_64 2.13-1.fc34 fedora 27 k libsmartcols  x86_64 2.36.1-3.fc34 fedora 59 k libssh  x86_64 0.9.5-1.fc34 fedora 209 k libssh-config  noarch 0.9.5-1.fc34 fedora 11 k libstdc++  x86_64 11.0.0-0.16.fc34 fedora 694 k libtasn1  x86_64 4.16.0-3.fc33 fedora 75 k libtirpc  x86_64 1.3.1-0.fc34 fedora 95 k libtool-ltdl  x86_64 2.4.6-38.fc34 fedora 36 k libunistring  x86_64 0.9.10-9.fc33 fedora 516 k libutempter  x86_64 1.2.1-3.fc34 fedora 26 k libuuid  x86_64 2.36.1-3.fc34 fedora 24 k libverto  x86_64 0.3.1-2.fc34 fedora 21 k libxcrypt  x86_64 4.4.17-1.fc34 fedora 121 k libxml2  x86_64 2.9.10-9.fc34 fedora 744 k libzstd  x86_64 1.4.7-1.fc34 fedora 340 k lua-libs  x86_64 5.4.2-1.fc34 fedora 216 k lua-srpm-macros  noarch 1-2.fc34 fedora 7.9 k lz4-libs  x86_64 1.9.3-1.fc34 fedora 67 k mpfr  x86_64 4.1.0-2.fc33 fedora 1.4 M ncurses-base  noarch 6.2-3.20200222.fc33 fedora 60 k ncurses-libs  x86_64 6.2-3.20200222.fc33 fedora 329 k nim-srpm-macros  noarch 3-3.fc33 fedora 8.3 k ocaml-srpm-macros  noarch 6-3.fc33 fedora 7.7 k openblas-srpm-macros  noarch 2-8.fc33 fedora 7.2 k openldap  x86_64 2.4.57-1.fc34 fedora 261 k openssl-libs  x86_64 1:1.1.1i-1.fc34 fedora 1.4 M p11-kit  x86_64 0.23.22-1.fc34 fedora 369 k p11-kit-trust  x86_64 0.23.22-1.fc34 fedora 141 k pam  x86_64 1.5.1-2.fc34 fedora 545 k pcre  x86_64 8.44-3.fc34 fedora 200 k pcre2  x86_64 10.36-2.fc34 fedora 234 k pcre2-syntax  noarch 10.36-2.fc34 fedora 143 k perl-srpm-macros  noarch 1-38.fc33 fedora 8.3 k pkgconf  x86_64 1.7.3-5.fc34 fedora 41 k pkgconf-m4  noarch 1.7.3-5.fc34 fedora 14 k pkgconf-pkg-config  x86_64 1.7.3-5.fc34 fedora 10 k popt  x86_64 1.18-2.fc34 fedora 59 k publicsuffix-list-dafsa  noarch 20190417-4.fc33 fedora 55 k python-srpm-macros  noarch 3.9-11.fc34 fedora 20 k qt5-srpm-macros  noarch 5.15.2-1.fc34 fedora 8.4 k readline  x86_64 8.1-1.fc34 fedora 216 k rpm  x86_64 4.16.1.2-4.fc34 fedora 527 k rpm-build-libs  x86_64 4.16.1.2-4.fc34 fedora 97 k rpm-libs  x86_64 4.16.1.2-4.fc34 fedora 326 k rust-srpm-macros  noarch 17-1.fc34 fedora 9.8 k setup  noarch 2.13.7-2.fc33 fedora 142 k sqlite-libs  x86_64 3.34.0-1.fc34 fedora 626 k systemd-libs  x86_64 247.2-1.fc34 fedora 546 k tzdata  noarch 2020f-1.fc34 fedora 432 k xxhash-libs  x86_64 0.8.0-1.fc33 fedora 41 k xz-libs  x86_64 5.2.5-4.fc34 fedora 91 k zip  x86_64 3.0-27.fc33 fedora 258 k zlib  x86_64 1.2.11-23.fc34 fedora 92 k zstd  x86_64 1.4.7-1.fc34 fedora 568 k Installing Groups: Buildsystem building group Transaction Summary ================================================================================ Install 148 Packages Total download size: 58 M Installed size: 224 M Downloading Packages: (1/148): cyrus-sasl-lib-2.1.27-7.fc34.x86_64.rp 2.0 MB/s | 101 kB 00:00 (2/148): basesystem-11-10.fc33.noarch.rpm 93 kB/s | 6.8 kB 00:00 (3/148): alternatives-1.15-1.fc34.x86_64.rpm 244 kB/s | 35 kB 00:00 (4/148): audit-libs-3.0-1.fc34.x86_64.rpm 606 kB/s | 113 kB 00:00 (5/148): bash-5.1.0-1.fc34.x86_64.rpm 16 MB/s | 1.7 MB 00:00 (6/148): bzip2-1.0.8-4.fc33.x86_64.rpm 1.1 MB/s | 52 kB 00:00 (7/148): bzip2-libs-1.0.8-4.fc33.x86_64.rpm 3.3 MB/s | 40 kB 00:00 (8/148): binutils-gold-2.35.1-24.fc34.x86_64.rp 6.8 MB/s | 747 kB 00:00 (9/148): ca-certificates-2020.2.41-6.fc34.noarc 22 MB/s | 353 kB 00:00 (10/148): coreutils-8.32-15.fc34.x86_64.rpm 27 MB/s | 1.1 MB 00:00 (11/148): coreutils-common-8.32-15.fc34.x86_64. 44 MB/s | 2.0 MB 00:00 (12/148): binutils-2.35.1-24.fc34.x86_64.rpm 23 MB/s | 5.3 MB 00:00 (13/148): cracklib-2.9.6-24.fc33.x86_64.rpm 3.1 MB/s | 83 kB 00:00 (14/148): cpio-2.13-8.fc33.x86_64.rpm 6.0 MB/s | 273 kB 00:00 (15/148): crypto-policies-20210118-1.gitb21c811 4.7 MB/s | 76 kB 00:00 (16/148): curl-7.74.0-2.fc34.x86_64.rpm 18 MB/s | 300 kB 00:00 (17/148): diffutils-3.7-7.fc34.x86_64.rpm 9.7 MB/s | 390 kB 00:00 (18/148): ed-1.14.2-9.fc33.x86_64.rpm 2.6 MB/s | 75 kB 00:00 (19/148): dwz-0.13-7.fc34.x86_64.rpm 3.0 MB/s | 126 kB 00:00 (20/148): efi-srpm-macros-4-5.fc33.noarch.rpm 660 kB/s | 21 kB 00:00 (21/148): elfutils-0.182-2.fc34.x86_64.rpm 13 MB/s | 525 kB 00:00 (22/148): elfutils-debuginfod-client-0.182-2.fc 968 kB/s | 32 kB 00:00 (23/148): elfutils-default-yama-scope-0.182-2.f 1.0 MB/s | 16 kB 00:00 (24/148): elfutils-libelf-0.182-2.fc34.x86_64.r 14 MB/s | 193 kB 00:00 (25/148): elfutils-libs-0.182-2.fc34.x86_64.rpm 14 MB/s | 265 kB 00:00 (26/148): expat-2.2.10-1.fc34.x86_64.rpm 5.7 MB/s | 104 kB 00:00 (27/148): fedora-gpg-keys-34-0.8.noarch.rpm 8.3 MB/s | 107 kB 00:00 (28/148): fedora-release-34-0.10.noarch.rpm 757 kB/s | 11 kB 00:00 (29/148): fedora-release-identity-basic-34-0.10 994 kB/s | 12 kB 00:00 (30/148): fedora-release-common-34-0.10.noarch. 1.2 MB/s | 20 kB 00:00 (31/148): fedora-repos-34-0.8.noarch.rpm 742 kB/s | 11 kB 00:00 (32/148): fedora-repos-rawhide-34-0.8.noarch.rp 698 kB/s | 10 kB 00:00 (33/148): file-5.39-4.fc34.x86_64.rpm 2.0 MB/s | 51 kB 00:00 (34/148): file-libs-5.39-4.fc34.x86_64.rpm 26 MB/s | 591 kB 00:00 (35/148): filesystem-3.14-4.fc34.x86_64.rpm 35 MB/s | 1.1 MB 00:00 (36/148): findutils-4.8.0-1.fc34.x86_64.rpm 14 MB/s | 545 kB 00:00 (37/148): fonts-srpm-macros-2.0.5-4.fc33.noarch 917 kB/s | 27 kB 00:00 (38/148): fpc-srpm-macros-1.3-2.fc33.noarch.rpm 238 kB/s | 7.6 kB 00:00 (39/148): gawk-5.1.0-2.fc33.x86_64.rpm 44 MB/s | 1.0 MB 00:00 (40/148): gc-8.0.4-4.fc33.x86_64.rpm 4.4 MB/s | 104 kB 00:00 (41/148): ghc-srpm-macros-1.5.0-3.fc33.noarch.r 337 kB/s | 7.7 kB 00:00 (42/148): glibc-common-2.32.9000-26.fc34.x86_64 54 MB/s | 2.1 MB 00:00 (43/148): glibc-2.32.9000-26.fc34.x86_64.rpm 46 MB/s | 3.5 MB 00:00 (44/148): glibc-minimal-langpack-2.32.9000-26.f 6.3 MB/s | 110 kB 00:00 (45/148): gdb-minimal-10.1-2.fc34.x86_64.rpm 33 MB/s | 3.6 MB 00:00 (46/148): gmp-6.2.0-5.fc34.x86_64.rpm 13 MB/s | 320 kB 00:00 (47/148): gnat-srpm-macros-4-12.fc33.noarch.rpm 311 kB/s | 8.2 kB 00:00 (48/148): grep-3.6-1.fc34.x86_64.rpm 15 MB/s | 260 kB 00:00 (49/148): go-srpm-macros-3.0.9-1.fc34.noarch.rp 863 kB/s | 25 kB 00:00 (50/148): gzip-1.10-3.fc33.x86_64.rpm 5.2 MB/s | 152 kB 00:00 (51/148): kernel-srpm-macros-1.0-3.fc33.noarch. 302 kB/s | 7.2 kB 00:00 (52/148): keyutils-libs-1.6.1-1.fc34.x86_64.rpm 1.9 MB/s | 31 kB 00:00 (53/148): info-6.7-8.fc33.x86_64.rpm 3.2 MB/s | 228 kB 00:00 (54/148): guile22-2.2.7-1.fc34.x86_64.rpm 51 MB/s | 6.5 MB 00:00 (55/148): krb5-libs-1.19-0.beta2.1.fc34.x86_64. 15 MB/s | 734 kB 00:00 (56/148): libacl-2.2.53-9.fc34.x86_64.rpm 593 kB/s | 23 kB 00:00 (57/148): libblkid-2.36.1-3.fc34.x86_64.rpm 8.0 MB/s | 100 kB 00:00 (58/148): libattr-2.4.48-10.fc33.x86_64.rpm 1.2 MB/s | 18 kB 00:00 (59/148): libarchive-3.5.1-1.fc34.x86_64.rpm 19 MB/s | 391 kB 00:00 (60/148): libbrotli-1.0.9-3.fc34.x86_64.rpm 21 MB/s | 322 kB 00:00 (61/148): libcap-2.46-1.fc34.x86_64.rpm 4.2 MB/s | 65 kB 00:00 (62/148): libcap-ng-0.8.2-1.fc34.x86_64.rpm 2.1 MB/s | 32 kB 00:00 (63/148): libcom_err-1.45.6-4.fc33.x86_64.rpm 2.3 MB/s | 27 kB 00:00 (64/148): libcurl-7.74.0-2.fc34.x86_64.rpm 16 MB/s | 285 kB 00:00 (65/148): libdb-5.3.28-45.fc34.x86_64.rpm 33 MB/s | 760 kB 00:00 (66/148): libeconf-0.3.8-4.fc33.x86_64.rpm 1.1 MB/s | 24 kB 00:00 (67/148): libffi-3.1-27.fc34.x86_64.rpm 2.2 MB/s | 33 kB 00:00 (68/148): libgcc-11.0.0-0.16.fc34.x86_64.rpm 7.2 MB/s | 90 kB 00:00 (69/148): libfdisk-2.36.1-3.fc34.x86_64.rpm 5.0 MB/s | 151 kB 00:00 (70/148): libgcrypt-1.8.7-1.fc34.x86_64.rpm 24 MB/s | 476 kB 00:00 (71/148): libgomp-11.0.0-0.16.fc34.x86_64.rpm 15 MB/s | 260 kB 00:00 (72/148): libgpg-error-1.41-1.fc34.x86_64.rpm 12 MB/s | 212 kB 00:00 (73/148): libmetalink-0.1.3-13.fc33.x86_64.rpm 2.6 MB/s | 31 kB 00:00 (74/148): libidn2-2.3.0-4.fc34.x86_64.rpm 6.3 MB/s | 104 kB 00:00 (75/148): libmount-2.36.1-3.fc34.x86_64.rpm 8.1 MB/s | 131 kB 00:00 (76/148): libnghttp2-1.42.0-1.fc34.x86_64.rpm 6.1 MB/s | 76 kB 00:00 (77/148): libnsl2-1.3.0-1.fc34.x86_64.rpm 3.8 MB/s | 58 kB 00:00 (78/148): libpsl-0.21.1-2.fc33.x86_64.rpm 4.9 MB/s | 61 kB 00:00 (79/148): libselinux-3.2-0.rc1.1.fc34.x86_64.rp 6.8 MB/s | 84 kB 00:00 (80/148): libpwquality-1.4.4-1.fc34.x86_64.rpm 3.9 MB/s | 104 kB 00:00 (81/148): libpkgconf-1.7.3-5.fc34.x86_64.rpm 806 kB/s | 36 kB 00:00 (82/148): libsemanage-3.2-0.rc1.1.fc34.x86_64.r 8.1 MB/s | 116 kB 00:00 (83/148): libsepol-3.2-0.rc1.1.fc34.x86_64.rpm 16 MB/s | 286 kB 00:00 (84/148): libsmartcols-2.36.1-3.fc34.x86_64.rpm 4.9 MB/s | 59 kB 00:00 (85/148): libsigsegv-2.13-1.fc34.x86_64.rpm 1.8 MB/s | 27 kB 00:00 (86/148): libssh-config-0.9.5-1.fc34.noarch.rpm 985 kB/s | 11 kB 00:00 (87/148): libssh-0.9.5-1.fc34.x86_64.rpm 11 MB/s | 209 kB 00:00 (88/148): libstdc++-11.0.0-0.16.fc34.x86_64.rpm 33 MB/s | 694 kB 00:00 (89/148): libtasn1-4.16.0-3.fc33.x86_64.rpm 6.0 MB/s | 75 kB 00:00 (90/148): libtirpc-1.3.1-0.fc34.x86_64.rpm 6.0 MB/s | 95 kB 00:00 (91/148): libunistring-0.9.10-9.fc33.x86_64.rpm 30 MB/s | 516 kB 00:00 (92/148): libutempter-1.2.1-3.fc34.x86_64.rpm 1.2 MB/s | 26 kB 00:00 (93/148): libtool-ltdl-2.4.6-38.fc34.x86_64.rpm 1.1 MB/s | 36 kB 00:00 (94/148): libuuid-2.36.1-3.fc34.x86_64.rpm 1.9 MB/s | 24 kB 00:00 (95/148): libverto-0.3.1-2.fc34.x86_64.rpm 1.4 MB/s | 21 kB 00:00 (96/148): libxcrypt-4.4.17-1.fc34.x86_64.rpm 7.1 MB/s | 121 kB 00:00 (97/148): libxml2-2.9.10-9.fc34.x86_64.rpm 33 MB/s | 744 kB 00:00 (98/148): libzstd-1.4.7-1.fc34.x86_64.rpm 19 MB/s | 340 kB 00:00 (99/148): lua-libs-5.4.2-1.fc34.x86_64.rpm 11 MB/s | 216 kB 00:00 (100/148): lua-srpm-macros-1-2.fc34.noarch.rpm 387 kB/s | 7.9 kB 00:00 (101/148): lz4-libs-1.9.3-1.fc34.x86_64.rpm 4.3 MB/s | 67 kB 00:00 (102/148): ncurses-base-6.2-3.20200222.fc33.noa 3.9 MB/s | 60 kB 00:00 (103/148): mpfr-4.1.0-2.fc33.x86_64.rpm 45 MB/s | 1.4 MB 00:00 (104/148): make-4.3-2.fc33.x86_64.rpm 12 MB/s | 539 kB 00:00 (105/148): ncurses-libs-6.2-3.20200222.fc33.x86 18 MB/s | 329 kB 00:00 (106/148): nim-srpm-macros-3-3.fc33.noarch.rpm 332 kB/s | 8.3 kB 00:00 (107/148): ocaml-srpm-macros-6-3.fc33.noarch.rp 218 kB/s | 7.7 kB 00:00 (108/148): openblas-srpm-macros-2-8.fc33.noarch 222 kB/s | 7.2 kB 00:00 (109/148): openldap-2.4.57-1.fc34.x86_64.rpm 15 MB/s | 261 kB 00:00 (110/148): p11-kit-trust-0.23.22-1.fc34.x86_64. 10 MB/s | 141 kB 00:00 (111/148): p11-kit-0.23.22-1.fc34.x86_64.rpm 18 MB/s | 369 kB 00:00 (112/148): openssl-libs-1.1.1i-1.fc34.x86_64.rp 45 MB/s | 1.4 MB 00:00 (113/148): pcre-8.44-3.fc34.x86_64.rpm 12 MB/s | 200 kB 00:00 (114/148): patch-2.7.6-13.fc33.x86_64.rpm 3.8 MB/s | 129 kB 00:00 (115/148): pam-1.5.1-2.fc34.x86_64.rpm 13 MB/s | 545 kB 00:00 (116/148): pcre2-10.36-2.fc34.x86_64.rpm 14 MB/s | 234 kB 00:00 (117/148): pcre2-syntax-10.36-2.fc34.noarch.rpm 8.9 MB/s | 143 kB 00:00 (118/148): perl-srpm-macros-1-38.fc33.noarch.rp 321 kB/s | 8.3 kB 00:00 (119/148): pkgconf-1.7.3-5.fc34.x86_64.rpm 1.7 MB/s | 41 kB 00:00 (120/148): pkgconf-m4-1.7.3-5.fc34.noarch.rpm 440 kB/s | 14 kB 00:00 (121/148): popt-1.18-2.fc34.x86_64.rpm 3.8 MB/s | 59 kB 00:00 (122/148): pkgconf-pkg-config-1.7.3-5.fc34.x86_ 438 kB/s | 10 kB 00:00 (123/148): publicsuffix-list-dafsa-20190417-4.f 3.6 MB/s | 55 kB 00:00 (124/148): qt5-srpm-macros-5.15.2-1.fc34.noarch 335 kB/s | 8.4 kB 00:00 (125/148): python-srpm-macros-3.9-11.fc34.noarc 691 kB/s | 20 kB 00:00 (126/148): readline-8.1-1.fc34.x86_64.rpm 12 MB/s | 216 kB 00:00 (127/148): rpm-4.16.1.2-4.fc34.x86_64.rpm 27 MB/s | 527 kB 00:00 (128/148): rpm-build-4.16.1.2-4.fc34.x86_64.rpm 3.8 MB/s | 107 kB 00:00 (129/148): redhat-rpm-config-180-1.fc34.noarch. 1.9 MB/s | 71 kB 00:00 (130/148): rpm-build-libs-4.16.1.2-4.fc34.x86_6 5.7 MB/s | 97 kB 00:00 (131/148): rpm-libs-4.16.1.2-4.fc34.x86_64.rpm 18 MB/s | 326 kB 00:00 (132/148): sed-4.8-6.fc34.x86_64.rpm 20 MB/s | 298 kB 00:00 (133/148): rust-srpm-macros-17-1.fc34.noarch.rp 363 kB/s | 9.8 kB 00:00 (134/148): setup-2.13.7-2.fc33.noarch.rpm 7.8 MB/s | 142 kB 00:00 (135/148): shadow-utils-4.8.1-6.fc34.x86_64.rpm 49 MB/s | 1.2 MB 00:00 (136/148): sqlite-libs-3.34.0-1.fc34.x86_64.rpm 29 MB/s | 626 kB 00:00 (137/148): systemd-libs-247.2-1.fc34.x86_64.rpm 23 MB/s | 546 kB 00:00 (138/148): tzdata-2020f-1.fc34.noarch.rpm 23 MB/s | 432 kB 00:00 (139/148): tar-1.32-6.fc33.x86_64.rpm 22 MB/s | 880 kB 00:00 (140/148): unzip-6.0-49.fc33.x86_64.rpm 6.6 MB/s | 181 kB 00:00 (141/148): which-2.21-20.fc33.x86_64.rpm 1.6 MB/s | 41 kB 00:00 (142/148): xxhash-libs-0.8.0-1.fc33.x86_64.rpm 1.1 MB/s | 41 kB 00:00 (143/148): util-linux-2.36.1-3.fc34.x86_64.rpm 41 MB/s | 2.5 MB 00:00 (144/148): xz-libs-5.2.5-4.fc34.x86_64.rpm 5.8 MB/s | 91 kB 00:00 (145/148): xz-5.2.5-4.fc34.x86_64.rpm 7.0 MB/s | 215 kB 00:00 (146/148): zlib-1.2.11-23.fc34.x86_64.rpm 5.8 MB/s | 92 kB 00:00 (147/148): zip-3.0-27.fc33.x86_64.rpm 9.8 MB/s | 258 kB 00:00 (148/148): zstd-1.4.7-1.fc34.x86_64.rpm 9.1 MB/s | 568 kB 00:00 -------------------------------------------------------------------------------- Total 31 MB/s | 58 MB 00:01 warning: /var/lib/mock/fedora-rawhide-x86_64-1611737311.604998/root/var/cache/dnf/fedora-2d95c80a1fa0a67d/packages/alternatives-1.15-1.fc34.x86_64.rpm: Header V4 RSA/SHA256 Signature, key ID 45719a39: NOKEY fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x45719A39: Userid : "Fedora (34) " Fingerprint: 8C5B A699 0BDB 26E1 9F2A 1A80 1161 AE69 4571 9A39 From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-34-primary Key imported successfully fedora 1.6 MB/s | 1.6 kB 00:00 GPG key at file:///usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-34-primary (0x45719A39) is already installed fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x9570FF31: Userid : "Fedora (33) " Fingerprint: 963A 2BEB 0200 9608 FE67 EA42 49FD 7749 9570 FF31 From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-33-primary Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.14-4.fc34.x86_64 1/1 Preparing : 1/1 Installing : libgcc-11.0.0-0.16.fc34.x86_64 1/148 Running scriptlet: libgcc-11.0.0-0.16.fc34.x86_64 1/148 Installing : crypto-policies-20210118-1.gitb21c811.fc34.noarc 2/148 Running scriptlet: crypto-policies-20210118-1.gitb21c811.fc34.noarc 2/148 Installing : fedora-release-identity-basic-34-0.10.noarch 3/148 Installing : tzdata-2020f-1.fc34.noarch 4/148 Installing : rust-srpm-macros-17-1.fc34.noarch 5/148 Installing : qt5-srpm-macros-5.15.2-1.fc34.noarch 6/148 Installing : publicsuffix-list-dafsa-20190417-4.fc33.noarch 7/148 Installing : pkgconf-m4-1.7.3-5.fc34.noarch 8/148 Installing : perl-srpm-macros-1-38.fc33.noarch 9/148 Installing : pcre2-syntax-10.36-2.fc34.noarch 10/148 Installing : openblas-srpm-macros-2-8.fc33.noarch 11/148 Installing : ocaml-srpm-macros-6-3.fc33.noarch 12/148 Installing : nim-srpm-macros-3-3.fc33.noarch 13/148 Installing : ncurses-base-6.2-3.20200222.fc33.noarch 14/148 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gc-8.0.4-4.fc33.x86_64 40/148 Verifying : gdb-minimal-10.1-2.fc34.x86_64 41/148 Verifying : ghc-srpm-macros-1.5.0-3.fc33.noarch 42/148 Verifying : glibc-2.32.9000-26.fc34.x86_64 43/148 Verifying : glibc-common-2.32.9000-26.fc34.x86_64 44/148 Verifying : glibc-minimal-langpack-2.32.9000-26.fc34.x86_64 45/148 Verifying : gmp-1:6.2.0-5.fc34.x86_64 46/148 Verifying : gnat-srpm-macros-4-12.fc33.noarch 47/148 Verifying : go-srpm-macros-3.0.9-1.fc34.noarch 48/148 Verifying : grep-3.6-1.fc34.x86_64 49/148 Verifying : guile22-2.2.7-1.fc34.x86_64 50/148 Verifying : gzip-1.10-3.fc33.x86_64 51/148 Verifying : info-6.7-8.fc33.x86_64 52/148 Verifying : kernel-srpm-macros-1.0-3.fc33.noarch 53/148 Verifying : keyutils-libs-1.6.1-1.fc34.x86_64 54/148 Verifying : krb5-libs-1.19-0.beta2.1.fc34.x86_64 55/148 Verifying : libacl-2.2.53-9.fc34.x86_64 56/148 Verifying : libarchive-3.5.1-1.fc34.x86_64 57/148 Verifying : libattr-2.4.48-10.fc33.x86_64 58/148 Verifying : libblkid-2.36.1-3.fc34.x86_64 59/148 Verifying : libbrotli-1.0.9-3.fc34.x86_64 60/148 Verifying : libcap-2.46-1.fc34.x86_64 61/148 Verifying : libcap-ng-0.8.2-1.fc34.x86_64 62/148 Verifying : libcom_err-1.45.6-4.fc33.x86_64 63/148 Verifying : libcurl-7.74.0-2.fc34.x86_64 64/148 Verifying : libdb-5.3.28-45.fc34.x86_64 65/148 Verifying : libeconf-0.3.8-4.fc33.x86_64 66/148 Verifying : libfdisk-2.36.1-3.fc34.x86_64 67/148 Verifying : libffi-3.1-27.fc34.x86_64 68/148 Verifying : libgcc-11.0.0-0.16.fc34.x86_64 69/148 Verifying : libgcrypt-1.8.7-1.fc34.x86_64 70/148 Verifying : libgomp-11.0.0-0.16.fc34.x86_64 71/148 Verifying : libgpg-error-1.41-1.fc34.x86_64 72/148 Verifying : libidn2-2.3.0-4.fc34.x86_64 73/148 Verifying : libmetalink-0.1.3-13.fc33.x86_64 74/148 Verifying : libmount-2.36.1-3.fc34.x86_64 75/148 Verifying : libnghttp2-1.42.0-1.fc34.x86_64 76/148 Verifying : libnsl2-1.3.0-1.fc34.x86_64 77/148 Verifying : libpkgconf-1.7.3-5.fc34.x86_64 78/148 Verifying : libpsl-0.21.1-2.fc33.x86_64 79/148 Verifying : libpwquality-1.4.4-1.fc34.x86_64 80/148 Verifying : libselinux-3.2-0.rc1.1.fc34.x86_64 81/148 Verifying : libsemanage-3.2-0.rc1.1.fc34.x86_64 82/148 Verifying : libsepol-3.2-0.rc1.1.fc34.x86_64 83/148 Verifying : libsigsegv-2.13-1.fc34.x86_64 84/148 Verifying : libsmartcols-2.36.1-3.fc34.x86_64 85/148 Verifying : libssh-0.9.5-1.fc34.x86_64 86/148 Verifying : libssh-config-0.9.5-1.fc34.noarch 87/148 Verifying : libstdc++-11.0.0-0.16.fc34.x86_64 88/148 Verifying : libtasn1-4.16.0-3.fc33.x86_64 89/148 Verifying : libtirpc-1.3.1-0.fc34.x86_64 90/148 Verifying : libtool-ltdl-2.4.6-38.fc34.x86_64 91/148 Verifying : libunistring-0.9.10-9.fc33.x86_64 92/148 Verifying : libutempter-1.2.1-3.fc34.x86_64 93/148 Verifying : libuuid-2.36.1-3.fc34.x86_64 94/148 Verifying : libverto-0.3.1-2.fc34.x86_64 95/148 Verifying : libxcrypt-4.4.17-1.fc34.x86_64 96/148 Verifying : libxml2-2.9.10-9.fc34.x86_64 97/148 Verifying : libzstd-1.4.7-1.fc34.x86_64 98/148 Verifying : lua-libs-5.4.2-1.fc34.x86_64 99/148 Verifying : lua-srpm-macros-1-2.fc34.noarch 100/148 Verifying : lz4-libs-1.9.3-1.fc34.x86_64 101/148 Verifying : make-1:4.3-2.fc33.x86_64 102/148 Verifying : mpfr-4.1.0-2.fc33.x86_64 103/148 Verifying : ncurses-base-6.2-3.20200222.fc33.noarch 104/148 Verifying : ncurses-libs-6.2-3.20200222.fc33.x86_64 105/148 Verifying : nim-srpm-macros-3-3.fc33.noarch 106/148 Verifying : ocaml-srpm-macros-6-3.fc33.noarch 107/148 Verifying : openblas-srpm-macros-2-8.fc33.noarch 108/148 Verifying : openldap-2.4.57-1.fc34.x86_64 109/148 Verifying : openssl-libs-1:1.1.1i-1.fc34.x86_64 110/148 Verifying : p11-kit-0.23.22-1.fc34.x86_64 111/148 Verifying : p11-kit-trust-0.23.22-1.fc34.x86_64 112/148 Verifying : pam-1.5.1-2.fc34.x86_64 113/148 Verifying : patch-2.7.6-13.fc33.x86_64 114/148 Verifying : pcre-8.44-3.fc34.x86_64 115/148 Verifying : pcre2-10.36-2.fc34.x86_64 116/148 Verifying : pcre2-syntax-10.36-2.fc34.noarch 117/148 Verifying : perl-srpm-macros-1-38.fc33.noarch 118/148 Verifying : pkgconf-1.7.3-5.fc34.x86_64 119/148 Verifying : pkgconf-m4-1.7.3-5.fc34.noarch 120/148 Verifying : pkgconf-pkg-config-1.7.3-5.fc34.x86_64 121/148 Verifying : popt-1.18-2.fc34.x86_64 122/148 Verifying : publicsuffix-list-dafsa-20190417-4.fc33.noarch 123/148 Verifying : python-srpm-macros-3.9-11.fc34.noarch 124/148 Verifying : qt5-srpm-macros-5.15.2-1.fc34.noarch 125/148 Verifying : readline-8.1-1.fc34.x86_64 126/148 Verifying : redhat-rpm-config-180-1.fc34.noarch 127/148 Verifying : rpm-4.16.1.2-4.fc34.x86_64 128/148 Verifying : rpm-build-4.16.1.2-4.fc34.x86_64 129/148 Verifying : rpm-build-libs-4.16.1.2-4.fc34.x86_64 130/148 Verifying : rpm-libs-4.16.1.2-4.fc34.x86_64 131/148 Verifying : rust-srpm-macros-17-1.fc34.noarch 132/148 Verifying : sed-4.8-6.fc34.x86_64 133/148 Verifying : setup-2.13.7-2.fc33.noarch 134/148 Verifying : shadow-utils-2:4.8.1-6.fc34.x86_64 135/148 Verifying : sqlite-libs-3.34.0-1.fc34.x86_64 136/148 Verifying : systemd-libs-247.2-1.fc34.x86_64 137/148 Verifying : tar-2:1.32-6.fc33.x86_64 138/148 Verifying : tzdata-2020f-1.fc34.noarch 139/148 Verifying : unzip-6.0-49.fc33.x86_64 140/148 Verifying : util-linux-2.36.1-3.fc34.x86_64 141/148 Verifying : which-2.21-20.fc33.x86_64 142/148 Verifying : xxhash-libs-0.8.0-1.fc33.x86_64 143/148 Verifying : xz-5.2.5-4.fc34.x86_64 144/148 Verifying : xz-libs-5.2.5-4.fc34.x86_64 145/148 Verifying : zip-3.0-27.fc33.x86_64 146/148 Verifying : zlib-1.2.11-23.fc34.x86_64 147/148 Verifying : zstd-1.4.7-1.fc34.x86_64 148/148 Installed: alternatives-1.15-1.fc34.x86_64 audit-libs-3.0-1.fc34.x86_64 basesystem-11-10.fc33.noarch bash-5.1.0-1.fc34.x86_64 binutils-2.35.1-24.fc34.x86_64 binutils-gold-2.35.1-24.fc34.x86_64 bzip2-1.0.8-4.fc33.x86_64 bzip2-libs-1.0.8-4.fc33.x86_64 ca-certificates-2020.2.41-6.fc34.noarch coreutils-8.32-15.fc34.x86_64 coreutils-common-8.32-15.fc34.x86_64 cpio-2.13-8.fc33.x86_64 cracklib-2.9.6-24.fc33.x86_64 crypto-policies-20210118-1.gitb21c811.fc34.noarch curl-7.74.0-2.fc34.x86_64 cyrus-sasl-lib-2.1.27-7.fc34.x86_64 diffutils-3.7-7.fc34.x86_64 dwz-0.13-7.fc34.x86_64 ed-1.14.2-9.fc33.x86_64 efi-srpm-macros-4-5.fc33.noarch elfutils-0.182-2.fc34.x86_64 elfutils-debuginfod-client-0.182-2.fc34.x86_64 elfutils-default-yama-scope-0.182-2.fc34.noarch elfutils-libelf-0.182-2.fc34.x86_64 elfutils-libs-0.182-2.fc34.x86_64 expat-2.2.10-1.fc34.x86_64 fedora-gpg-keys-34-0.8.noarch fedora-release-34-0.10.noarch fedora-release-common-34-0.10.noarch fedora-release-identity-basic-34-0.10.noarch fedora-repos-34-0.8.noarch fedora-repos-rawhide-34-0.8.noarch file-5.39-4.fc34.x86_64 file-libs-5.39-4.fc34.x86_64 filesystem-3.14-4.fc34.x86_64 findutils-1:4.8.0-1.fc34.x86_64 fonts-srpm-macros-1:2.0.5-4.fc33.noarch fpc-srpm-macros-1.3-2.fc33.noarch gawk-5.1.0-2.fc33.x86_64 gc-8.0.4-4.fc33.x86_64 gdb-minimal-10.1-2.fc34.x86_64 ghc-srpm-macros-1.5.0-3.fc33.noarch glibc-2.32.9000-26.fc34.x86_64 glibc-common-2.32.9000-26.fc34.x86_64 glibc-minimal-langpack-2.32.9000-26.fc34.x86_64 gmp-1:6.2.0-5.fc34.x86_64 gnat-srpm-macros-4-12.fc33.noarch go-srpm-macros-3.0.9-1.fc34.noarch grep-3.6-1.fc34.x86_64 guile22-2.2.7-1.fc34.x86_64 gzip-1.10-3.fc33.x86_64 info-6.7-8.fc33.x86_64 kernel-srpm-macros-1.0-3.fc33.noarch keyutils-libs-1.6.1-1.fc34.x86_64 krb5-libs-1.19-0.beta2.1.fc34.x86_64 libacl-2.2.53-9.fc34.x86_64 libarchive-3.5.1-1.fc34.x86_64 libattr-2.4.48-10.fc33.x86_64 libblkid-2.36.1-3.fc34.x86_64 libbrotli-1.0.9-3.fc34.x86_64 libcap-2.46-1.fc34.x86_64 libcap-ng-0.8.2-1.fc34.x86_64 libcom_err-1.45.6-4.fc33.x86_64 libcurl-7.74.0-2.fc34.x86_64 libdb-5.3.28-45.fc34.x86_64 libeconf-0.3.8-4.fc33.x86_64 libfdisk-2.36.1-3.fc34.x86_64 libffi-3.1-27.fc34.x86_64 libgcc-11.0.0-0.16.fc34.x86_64 libgcrypt-1.8.7-1.fc34.x86_64 libgomp-11.0.0-0.16.fc34.x86_64 libgpg-error-1.41-1.fc34.x86_64 libidn2-2.3.0-4.fc34.x86_64 libmetalink-0.1.3-13.fc33.x86_64 libmount-2.36.1-3.fc34.x86_64 libnghttp2-1.42.0-1.fc34.x86_64 libnsl2-1.3.0-1.fc34.x86_64 libpkgconf-1.7.3-5.fc34.x86_64 libpsl-0.21.1-2.fc33.x86_64 libpwquality-1.4.4-1.fc34.x86_64 libselinux-3.2-0.rc1.1.fc34.x86_64 libsemanage-3.2-0.rc1.1.fc34.x86_64 libsepol-3.2-0.rc1.1.fc34.x86_64 libsigsegv-2.13-1.fc34.x86_64 libsmartcols-2.36.1-3.fc34.x86_64 libssh-0.9.5-1.fc34.x86_64 libssh-config-0.9.5-1.fc34.noarch libstdc++-11.0.0-0.16.fc34.x86_64 libtasn1-4.16.0-3.fc33.x86_64 libtirpc-1.3.1-0.fc34.x86_64 libtool-ltdl-2.4.6-38.fc34.x86_64 libunistring-0.9.10-9.fc33.x86_64 libutempter-1.2.1-3.fc34.x86_64 libuuid-2.36.1-3.fc34.x86_64 libverto-0.3.1-2.fc34.x86_64 libxcrypt-4.4.17-1.fc34.x86_64 libxml2-2.9.10-9.fc34.x86_64 libzstd-1.4.7-1.fc34.x86_64 lua-libs-5.4.2-1.fc34.x86_64 lua-srpm-macros-1-2.fc34.noarch lz4-libs-1.9.3-1.fc34.x86_64 make-1:4.3-2.fc33.x86_64 mpfr-4.1.0-2.fc33.x86_64 ncurses-base-6.2-3.20200222.fc33.noarch ncurses-libs-6.2-3.20200222.fc33.x86_64 nim-srpm-macros-3-3.fc33.noarch ocaml-srpm-macros-6-3.fc33.noarch openblas-srpm-macros-2-8.fc33.noarch openldap-2.4.57-1.fc34.x86_64 openssl-libs-1:1.1.1i-1.fc34.x86_64 p11-kit-0.23.22-1.fc34.x86_64 p11-kit-trust-0.23.22-1.fc34.x86_64 pam-1.5.1-2.fc34.x86_64 patch-2.7.6-13.fc33.x86_64 pcre-8.44-3.fc34.x86_64 pcre2-10.36-2.fc34.x86_64 pcre2-syntax-10.36-2.fc34.noarch perl-srpm-macros-1-38.fc33.noarch pkgconf-1.7.3-5.fc34.x86_64 pkgconf-m4-1.7.3-5.fc34.noarch pkgconf-pkg-config-1.7.3-5.fc34.x86_64 popt-1.18-2.fc34.x86_64 publicsuffix-list-dafsa-20190417-4.fc33.noarch python-srpm-macros-3.9-11.fc34.noarch qt5-srpm-macros-5.15.2-1.fc34.noarch readline-8.1-1.fc34.x86_64 redhat-rpm-config-180-1.fc34.noarch rpm-4.16.1.2-4.fc34.x86_64 rpm-build-4.16.1.2-4.fc34.x86_64 rpm-build-libs-4.16.1.2-4.fc34.x86_64 rpm-libs-4.16.1.2-4.fc34.x86_64 rust-srpm-macros-17-1.fc34.noarch sed-4.8-6.fc34.x86_64 setup-2.13.7-2.fc33.noarch shadow-utils-2:4.8.1-6.fc34.x86_64 sqlite-libs-3.34.0-1.fc34.x86_64 systemd-libs-247.2-1.fc34.x86_64 tar-2:1.32-6.fc33.x86_64 tzdata-2020f-1.fc34.noarch unzip-6.0-49.fc33.x86_64 util-linux-2.36.1-3.fc34.x86_64 which-2.21-20.fc33.x86_64 xxhash-libs-0.8.0-1.fc33.x86_64 xz-5.2.5-4.fc34.x86_64 xz-libs-5.2.5-4.fc34.x86_64 zip-3.0-27.fc33.x86_64 zlib-1.2.11-23.fc34.x86_64 zstd-1.4.7-1.fc34.x86_64 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: libmount-2.36.1-3.fc34.x86_64 elfutils-libelf-0.182-2.fc34.x86_64 rpm-4.16.1.2-4.fc34.x86_64 tar-1.32-6.fc33.x86_64 tzdata-2020f-1.fc34.noarch libcap-2.46-1.fc34.x86_64 rpm-libs-4.16.1.2-4.fc34.x86_64 xz-5.2.5-4.fc34.x86_64 libpwquality-1.4.4-1.fc34.x86_64 ghc-srpm-macros-1.5.0-3.fc33.noarch libgomp-11.0.0-0.16.fc34.x86_64 libattr-2.4.48-10.fc33.x86_64 gpg-pubkey-45719a39-5f2c0192 dwz-0.13-7.fc34.x86_64 libnghttp2-1.42.0-1.fc34.x86_64 gmp-6.2.0-5.fc34.x86_64 kernel-srpm-macros-1.0-3.fc33.noarch openblas-srpm-macros-2-8.fc33.noarch gpg-pubkey-9570ff31-5e3006fb ncurses-base-6.2-3.20200222.fc33.noarch glibc-2.32.9000-26.fc34.x86_64 fedora-repos-34-0.8.noarch audit-libs-3.0-1.fc34.x86_64 info-6.7-8.fc33.x86_64 gawk-5.1.0-2.fc33.x86_64 libdb-5.3.28-45.fc34.x86_64 ncurses-libs-6.2-3.20200222.fc33.x86_64 qt5-srpm-macros-5.15.2-1.fc34.noarch libfdisk-2.36.1-3.fc34.x86_64 libcom_err-1.45.6-4.fc33.x86_64 libverto-0.3.1-2.fc34.x86_64 libsigsegv-2.13-1.fc34.x86_64 p11-kit-trust-0.23.22-1.fc34.x86_64 gdb-minimal-10.1-2.fc34.x86_64 lua-srpm-macros-1-2.fc34.noarch libselinux-3.2-0.rc1.1.fc34.x86_64 libgpg-error-1.41-1.fc34.x86_64 libarchive-3.5.1-1.fc34.x86_64 fedora-release-common-34-0.10.noarch which-2.21-20.fc33.x86_64 fpc-srpm-macros-1.3-2.fc33.noarch basesystem-11-10.fc33.noarch libmetalink-0.1.3-13.fc33.x86_64 libgcrypt-1.8.7-1.fc34.x86_64 elfutils-libs-0.182-2.fc34.x86_64 cracklib-2.9.6-24.fc33.x86_64 publicsuffix-list-dafsa-20190417-4.fc33.noarch guile22-2.2.7-1.fc34.x86_64 libgcc-11.0.0-0.16.fc34.x86_64 pcre-8.44-3.fc34.x86_64 libtasn1-4.16.0-3.fc33.x86_64 grep-3.6-1.fc34.x86_64 file-libs-5.39-4.fc34.x86_64 libunistring-0.9.10-9.fc33.x86_64 gnat-srpm-macros-4-12.fc33.noarch fonts-srpm-macros-2.0.5-4.fc33.noarch libtirpc-1.3.1-0.fc34.x86_64 python-srpm-macros-3.9-11.fc34.noarch findutils-4.8.0-1.fc34.x86_64 p11-kit-0.23.22-1.fc34.x86_64 filesystem-3.14-4.fc34.x86_64 binutils-2.35.1-24.fc34.x86_64 zlib-1.2.11-23.fc34.x86_64 libxml2-2.9.10-9.fc34.x86_64 nim-srpm-macros-3-3.fc33.noarch cyrus-sasl-lib-2.1.27-7.fc34.x86_64 perl-srpm-macros-1-38.fc33.noarch libsepol-3.2-0.rc1.1.fc34.x86_64 fedora-release-identity-basic-34-0.10.noarch libbrotli-1.0.9-3.fc34.x86_64 alternatives-1.15-1.fc34.x86_64 setup-2.13.7-2.fc33.noarch elfutils-0.182-2.fc34.x86_64 ca-certificates-2020.2.41-6.fc34.noarch shadow-utils-4.8.1-6.fc34.x86_64 elfutils-debuginfod-client-0.182-2.fc34.x86_64 ocaml-srpm-macros-6-3.fc33.noarch redhat-rpm-config-180-1.fc34.noarch libzstd-1.4.7-1.fc34.x86_64 libidn2-2.3.0-4.fc34.x86_64 libcap-ng-0.8.2-1.fc34.x86_64 sed-4.8-6.fc34.x86_64 libsmartcols-2.36.1-3.fc34.x86_64 pkgconf-pkg-config-1.7.3-5.fc34.x86_64 openssl-libs-1.1.1i-1.fc34.x86_64 coreutils-8.32-15.fc34.x86_64 fedora-release-34-0.10.noarch crypto-policies-20210118-1.gitb21c811.fc34.noarch rpm-build-4.16.1.2-4.fc34.x86_64 xz-libs-5.2.5-4.fc34.x86_64 elfutils-default-yama-scope-0.182-2.fc34.noarch file-5.39-4.fc34.x86_64 libtool-ltdl-2.4.6-38.fc34.x86_64 libnsl2-1.3.0-1.fc34.x86_64 zstd-1.4.7-1.fc34.x86_64 keyutils-libs-1.6.1-1.fc34.x86_64 lua-libs-5.4.2-1.fc34.x86_64 rpm-build-libs-4.16.1.2-4.fc34.x86_64 lz4-libs-1.9.3-1.fc34.x86_64 bash-5.1.0-1.fc34.x86_64 expat-2.2.10-1.fc34.x86_64 ed-1.14.2-9.fc33.x86_64 zip-3.0-27.fc33.x86_64 libutempter-1.2.1-3.fc34.x86_64 patch-2.7.6-13.fc33.x86_64 libpsl-0.21.1-2.fc33.x86_64 pkgconf-1.7.3-5.fc34.x86_64 krb5-libs-1.19-0.beta2.1.fc34.x86_64 libssh-config-0.9.5-1.fc34.noarch go-srpm-macros-3.0.9-1.fc34.noarch util-linux-2.36.1-3.fc34.x86_64 xxhash-libs-0.8.0-1.fc33.x86_64 pam-1.5.1-2.fc34.x86_64 efi-srpm-macros-4-5.fc33.noarch libpkgconf-1.7.3-5.fc34.x86_64 bzip2-libs-1.0.8-4.fc33.x86_64 curl-7.74.0-2.fc34.x86_64 pcre2-10.36-2.fc34.x86_64 libffi-3.1-27.fc34.x86_64 gc-8.0.4-4.fc33.x86_64 sqlite-libs-3.34.0-1.fc34.x86_64 glibc-minimal-langpack-2.32.9000-26.fc34.x86_64 bzip2-1.0.8-4.fc33.x86_64 pcre2-syntax-10.36-2.fc34.noarch mpfr-4.1.0-2.fc33.x86_64 libcurl-7.74.0-2.fc34.x86_64 gzip-1.10-3.fc33.x86_64 libssh-0.9.5-1.fc34.x86_64 libsemanage-3.2-0.rc1.1.fc34.x86_64 libstdc++-11.0.0-0.16.fc34.x86_64 libxcrypt-4.4.17-1.fc34.x86_64 libuuid-2.36.1-3.fc34.x86_64 binutils-gold-2.35.1-24.fc34.x86_64 pkgconf-m4-1.7.3-5.fc34.noarch popt-1.18-2.fc34.x86_64 readline-8.1-1.fc34.x86_64 libacl-2.2.53-9.fc34.x86_64 cpio-2.13-8.fc33.x86_64 unzip-6.0-49.fc33.x86_64 fedora-gpg-keys-34-0.8.noarch glibc-common-2.32.9000-26.fc34.x86_64 coreutils-common-8.32-15.fc34.x86_64 rust-srpm-macros-17-1.fc34.noarch openldap-2.4.57-1.fc34.x86_64 make-4.3-2.fc33.x86_64 libeconf-0.3.8-4.fc33.x86_64 fedora-repos-rawhide-34-0.8.noarch diffutils-3.7-7.fc34.x86_64 systemd-libs-247.2-1.fc34.x86_64 libblkid-2.36.1-3.fc34.x86_64 Start: buildsrpm Start: rpmbuild -bs Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1611273600 Wrote: /builddir/build/SRPMS/rdkit-2019.03.3-13.fc34.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-x86_64-1611737311.604998/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-x86_64-1611737311.604998/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-x86_64-1611737311.604998/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/tmp/copr-rpmbuild-osq25n8d/obtain-sources/rdkit/rdkit.spec) Config(child) 1 minutes 34 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run INFO: unmounting tmpfs. Running (timeout=18000): unbuffer mock --rebuild /var/lib/copr-rpmbuild/results/rdkit-2019.03.3-13.fc34.src.rpm --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1611737408.650207 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 2.9 starting (python version = 3.9.1, NVR = mock-2.9-1.fc33)... Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/results/rdkit-2019.03.3-13.fc34.src.rpm) Config(fedora-rawhide-x86_64) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-bootstrap-1611737408.650207/root. INFO: calling preinit hooks INFO: enabled root cache Start(bootstrap): unpacking root cache Finish(bootstrap): unpacking root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 2.9 INFO: Mock Version: 2.9 Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-rawhide-x86_64-1611737408.650207/root. INFO: calling preinit hooks INFO: enabled root cache Start: unpacking root cache Finish: unpacking root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 2.9 INFO: Mock Version: 2.9 Start: dnf update No matches found for the following disable plugin patterns: local, spacewalk Copr repository 184 kB/s | 3.6 kB 00:00 Copr repository 16 MB/s | 742 kB 00:00 fedora 96 kB/s | 13 kB 00:00 Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for rdkit-2019.03.3-13.fc34.src.rpm Start: build setup for rdkit-2019.03.3-13.fc34.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1611273600 Wrote: /builddir/build/SRPMS/rdkit-2019.03.3-13.fc34.src.rpm No matches found for the following disable plugin patterns: local, spacewalk Copr repository 201 kB/s | 3.6 kB 00:00 fedora 296 kB/s | 13 kB 00:00 Package make-1:4.3-2.fc33.x86_64 is already installed. Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing: bison  x86_64 3.7.4-1.fc34 fedora 925 k boost-devel  x86_64 1.73.0-11.fc34 fedora 11 M cairo-devel  x86_64 1.17.4-1.fc34 fedora 190 k catch-devel  x86_64 2.13.4-1.fc34 fedora 525 k chrpath  x86_64 0.16-14.fc34 fedora 30 k cmake  x86_64 3.19.3-1.fc34 fedora 5.7 M eigen3-devel  noarch 3.3.9-3.fc34 fedora 963 k flex  x86_64 2.6.4-6.fc34 fedora 312 k gcc-c++  x86_64 11.0.0-0.16.fc34 fedora 12 M inchi-devel  x86_64 1.0.5-10.fc33 fedora 23 k java-11-openjdk-devel  x86_64 1:11.0.10.0.8-0.2.ea.fc34 fedora 3.3 M junit  noarch 1:4.13-2.fc34 fedora 342 k libpq-devel  x86_64 13.1-1.fc34 fedora 93 k postgresql-server-devel  x86_64 12.4-3.fc34 fedora 1.0 M python3-devel  x86_64 3.9.1-3.fc34 fedora 235 k python3-numpy  x86_64 1:1.20.0-0.1.rc2.fc34 fedora 4.8 M swig  x86_64 4.0.2-3.fc34 fedora 1.4 M Installing dependencies: alsa-lib  x86_64 1.2.4-4.fc34 fedora 475 k annobin  x86_64 9.58-1.fc34 fedora 135 k avahi-libs  x86_64 0.8-6.fc34 fedora 67 k boost  x86_64 1.73.0-11.fc34 fedora 13 k boost-atomic  x86_64 1.73.0-11.fc34 fedora 15 k boost-chrono  x86_64 1.73.0-11.fc34 fedora 26 k boost-container  x86_64 1.73.0-11.fc34 fedora 38 k boost-context  x86_64 1.73.0-11.fc34 fedora 16 k boost-contract  x86_64 1.73.0-11.fc34 fedora 48 k boost-coroutine  x86_64 1.73.0-11.fc34 fedora 34 k boost-date-time  x86_64 1.73.0-11.fc34 fedora 15 k boost-fiber  x86_64 1.73.0-11.fc34 fedora 41 k boost-filesystem  x86_64 1.73.0-11.fc34 fedora 57 k boost-graph  x86_64 1.73.0-11.fc34 fedora 104 k boost-iostreams  x86_64 1.73.0-11.fc34 fedora 39 k boost-locale  x86_64 1.73.0-11.fc34 fedora 222 k boost-log  x86_64 1.73.0-11.fc34 fedora 415 k boost-math  x86_64 1.73.0-11.fc34 fedora 214 k boost-nowide  x86_64 1.73.0-11.fc34 fedora 17 k boost-numpy3  x86_64 1.73.0-11.fc34 fedora 29 k boost-program-options  x86_64 1.73.0-11.fc34 fedora 110 k boost-python3  x86_64 1.73.0-11.fc34 fedora 98 k boost-random  x86_64 1.73.0-11.fc34 fedora 26 k boost-regex  x86_64 1.73.0-11.fc34 fedora 289 k boost-serialization  x86_64 1.73.0-11.fc34 fedora 134 k boost-stacktrace  x86_64 1.73.0-11.fc34 fedora 29 k boost-system  x86_64 1.73.0-11.fc34 fedora 15 k boost-test  x86_64 1.73.0-11.fc34 fedora 239 k boost-thread  x86_64 1.73.0-11.fc34 fedora 62 k boost-timer  x86_64 1.73.0-11.fc34 fedora 26 k boost-type_erasure  x86_64 1.73.0-11.fc34 fedora 32 k boost-wave  x86_64 1.73.0-11.fc34 fedora 240 k brotli  x86_64 1.0.9-3.fc34 fedora 324 k brotli-devel  x86_64 1.0.9-3.fc34 fedora 32 k bzip2-devel  x86_64 1.0.8-4.fc33 fedora 214 k cairo  x86_64 1.17.4-1.fc34 fedora 670 k clang  x86_64 11.1.0-0.3.rc2.fc34 fedora 93 k clang-devel  x86_64 11.1.0-0.3.rc2.fc34 fedora 1.9 M clang-libs  x86_64 11.1.0-0.3.rc2.fc34 fedora 22 M clang-resource-filesystem  x86_64 11.1.0-0.3.rc2.fc34 fedora 13 k clang-tools-extra  x86_64 11.1.0-0.3.rc2.fc34 fedora 14 M cmake-data  noarch 3.19.3-1.fc34 fedora 1.5 M cmake-filesystem  x86_64 3.19.3-1.fc34 fedora 16 k cmake-rpm-macros  noarch 3.19.3-1.fc34 fedora 15 k copy-jdk-configs  noarch 3.7-7.fc33 fedora 24 k cpp  x86_64 11.0.0-0.16.fc34 fedora 10 M cups-libs  x86_64 1:2.3.3op1-1.fc34 fedora 274 k dbus-libs  x86_64 1:1.12.20-2.fc33 fedora 154 k dejavu-sans-fonts  noarch 2.37-15.fc34 fedora 1.3 M emacs-filesystem  noarch 1:27.1-2.fc34 fedora 8.2 k flexiblas  x86_64 3.0.4-2.fc34 fedora 31 k flexiblas-netlib  x86_64 3.0.4-2.fc34 fedora 3.0 M flexiblas-openblas-openmp  x86_64 3.0.4-2.fc34 fedora 17 k fontconfig  x86_64 2.13.93-4.fc34 fedora 275 k fontconfig-devel  x86_64 2.13.93-4.fc34 fedora 129 k fonts-filesystem  noarch 1:2.0.5-4.fc33 fedora 8.7 k freetype  x86_64 2.10.4-1.fc34 fedora 391 k freetype-devel  x86_64 2.10.4-1.fc34 fedora 1.1 M gcc  x86_64 11.0.0-0.16.fc34 fedora 31 M gdbm-libs  x86_64 1:1.19-1.fc34 fedora 54 k gettext  x86_64 0.21-3.fc34 fedora 1.1 M gettext-libs  x86_64 0.21-3.fc34 fedora 308 k giflib  x86_64 5.2.1-6.fc33 fedora 49 k glib2  x86_64 2.67.1-2.fc34 fedora 2.7 M glib2-devel  x86_64 2.67.1-2.fc34 fedora 472 k glibc-devel  x86_64 2.32.9000-26.fc34 fedora 1.1 M glibc-headers-x86  noarch 2.32.9000-26.fc34 fedora 514 k gnutls  x86_64 3.6.15-2.fc34 fedora 925 k graphite2  x86_64 1.3.14-6.fc34 fedora 95 k hamcrest-core  noarch 1.3-30.fc33 fedora 50 k harfbuzz  x86_64 2.7.4-1.fc34 fedora 635 k inchi-libs  x86_64 1.0.5-10.fc33 fedora 542 k isl  x86_64 0.16.1-12.fc33 fedora 876 k java-11-openjdk  x86_64 1:11.0.10.0.8-0.2.ea.fc34 fedora 251 k java-11-openjdk-headless  x86_64 1:11.0.10.0.8-0.2.ea.fc34 fedora 38 M javapackages-filesystem  noarch 5.3.0-14.fc34 fedora 11 k jsoncpp  x86_64 1.9.4-2.fc34 fedora 96 k kernel-headers  x86_64 5.11.0-0.rc4.git0.1.fc34 fedora 1.4 M keyutils-libs-devel  x86_64 1.6.1-1.fc34 fedora 52 k krb5-devel  x86_64 1.19-0.beta2.1.fc34 fedora 141 k langpacks-core-font-en  noarch 3.0-6.fc34 fedora 9.7 k lcms2  x86_64 2.11-2.fc33 fedora 169 k libX11  x86_64 1.7.0-2.fc34 fedora 660 k libX11-common  noarch 1.7.0-2.fc34 fedora 153 k libX11-devel  x86_64 1.7.0-2.fc34 fedora 940 k libX11-xcb  x86_64 1.7.0-2.fc34 fedora 11 k libXau  x86_64 1.0.9-5.fc34 fedora 31 k libXau-devel  x86_64 1.0.9-5.fc34 fedora 13 k libXcomposite  x86_64 0.4.5-4.fc34 fedora 23 k libXext  x86_64 1.3.4-5.fc34 fedora 39 k libXext-devel  x86_64 1.3.4-5.fc34 fedora 73 k libXi  x86_64 1.7.10-5.fc34 fedora 38 k libXrender  x86_64 0.9.10-13.fc34 fedora 27 k libXrender-devel  x86_64 0.9.10-13.fc34 fedora 16 k libXtst  x86_64 1.2.3-13.fc34 fedora 20 k libblkid-devel  x86_64 2.36.1-3.fc34 fedora 14 k libcom_err-devel  x86_64 1.45.6-4.fc33 fedora 16 k libedit  x86_64 3.1-33.20191231cvs.fc33 fedora 106 k libedit-devel  x86_64 3.1-33.20191231cvs.fc33 fedora 40 k libevent  x86_64 2.1.12-2.fc34 fedora 265 k libffi-devel  x86_64 3.1-27.fc34 fedora 24 k libfontenc  x86_64 1.1.3-14.fc34 fedora 31 k libgfortran  x86_64 11.0.0-0.16.fc34 fedora 802 k libicu  x86_64 67.1-4.fc33 fedora 9.7 M libicu-devel  x86_64 67.1-4.fc33 fedora 831 k libjpeg-turbo  x86_64 2.0.5-5.fc33 fedora 168 k libkadm5  x86_64 1.19-0.beta2.1.fc34 fedora 86 k libmount-devel  x86_64 2.36.1-3.fc34 fedora 15 k libmpc  x86_64 1.2.1-1.fc34 fedora 63 k libpng  x86_64 2:1.6.37-6.fc34 fedora 120 k libpng-devel  x86_64 2:1.6.37-6.fc34 fedora 291 k libpq  x86_64 13.1-1.fc34 fedora 209 k libquadmath  x86_64 11.0.0-0.16.fc34 fedora 194 k libquadmath-devel  x86_64 11.0.0-0.16.fc34 fedora 32 k libselinux-devel  x86_64 3.2-0.rc1.1.fc34 fedora 148 k libsepol-devel  x86_64 3.2-0.rc1.1.fc34 fedora 49 k libstdc++-devel  x86_64 11.0.0-0.16.fc34 fedora 2.2 M libtextstyle  x86_64 0.21-3.fc34 fedora 91 k libuv  x86_64 1:1.40.0-1.fc34 fedora 151 k libverto-devel  x86_64 0.3.1-2.fc34 fedora 14 k libxcb  x86_64 1.13.1-6.fc34 fedora 230 k libxcb-devel  x86_64 1.13.1-6.fc34 fedora 1.0 M libxcrypt-devel  x86_64 4.4.17-1.fc34 fedora 32 k libxml2-devel  x86_64 2.9.10-9.fc34 fedora 852 k lksctp-tools  x86_64 1.0.18-7.fc34 fedora 96 k llvm  x86_64 11.1.0-0.2.rc2.fc34 fedora 12 M llvm-devel  x86_64 11.1.0-0.2.rc2.fc34 fedora 2.9 M llvm-libs  x86_64 11.1.0-0.2.rc2.fc34 fedora 22 M llvm-static  x86_64 11.1.0-0.2.rc2.fc34 fedora 39 M llvm-test  x86_64 11.1.0-0.2.rc2.fc34 fedora 93 M lua  x86_64 5.4.2-1.fc34 fedora 189 k lua-posix  x86_64 35.0-2.fc33 fedora 132 k m4  x86_64 1.4.18-16.fc34 fedora 211 k ncurses-c++-libs  x86_64 6.2-3.20200222.fc33 fedora 37 k ncurses-devel  x86_64 6.2-3.20200222.fc33 fedora 510 k nettle  x86_64 3.7-1.fc34 fedora 396 k openblas  x86_64 0.3.12-1.fc34 fedora 31 k openblas-openmp  x86_64 0.3.12-1.fc34 fedora 4.6 M pcre-cpp  x86_64 8.44-3.fc34 fedora 26 k pcre-devel  x86_64 8.44-3.fc34 fedora 471 k pcre-utf16  x86_64 8.44-3.fc34 fedora 186 k pcre-utf32  x86_64 8.44-3.fc34 fedora 177 k pcre2-devel  x86_64 10.36-2.fc34 fedora 476 k pcre2-utf16  x86_64 10.36-2.fc34 fedora 213 k pcre2-utf32  x86_64 10.36-2.fc34 fedora 203 k pixman  x86_64 0.40.0-2.fc33 fedora 275 k pixman-devel  x86_64 0.40.0-2.fc33 fedora 17 k python-pip-wheel  noarch 20.3.3-3.fc34 fedora 1.3 M python-rpm-macros  noarch 3.9-11.fc34 fedora 14 k python-setuptools-wheel  noarch 51.1.2-1.fc34 fedora 471 k python3  x86_64 3.9.1-3.fc34 fedora 28 k python3-libs  x86_64 3.9.1-3.fc34 fedora 7.7 M python3-lit  noarch 0.11.1-2.rc2.fc34 fedora 146 k python3-rpm-generators  noarch 11-12.fc34 fedora 29 k python3-rpm-macros  noarch 3.9-11.fc34 fedora 13 k python3-setuptools  noarch 51.1.2-1.fc34 fedora 843 k rhash  x86_64 1.4.0-2.fc33 fedora 183 k ttmkfdir  x86_64 3.0.9-62.fc33 fedora 52 k tzdata-java  noarch 2020f-1.fc34 fedora 158 k vim-filesystem  noarch 2:8.2.2311-1.fc34 fedora 23 k xml-common  noarch 0.6.3-55.fc33 fedora 31 k xorg-x11-font-utils  x86_64 1:7.5-47.fc34 fedora 101 k xorg-x11-fonts-Type1  noarch 7.5-26.fc34 fedora 500 k xorg-x11-proto-devel  noarch 2019.1-5.fc34 fedora 261 k xz-devel  x86_64 5.2.5-4.fc34 fedora 51 k zlib-devel  x86_64 1.2.11-23.fc34 fedora 44 k Transaction Summary ================================================================================ Install 183 Packages Total download size: 390 M Installed size: 1.6 G Downloading Packages: (1/183): avahi-libs-0.8-6.fc34.x86_64.rpm 520 kB/s | 67 kB 00:00 (2/183): annobin-9.58-1.fc34.x86_64.rpm 967 kB/s | 135 kB 00:00 (3/183): alsa-lib-1.2.4-4.fc34.x86_64.rpm 2.5 MB/s | 475 kB 00:00 (4/183): boost-atomic-1.73.0-11.fc34.x86_64.rpm 1.2 MB/s | 15 kB 00:00 (5/183): bison-3.7.4-1.fc34.x86_64.rpm 12 MB/s | 925 kB 00:00 (6/183): boost-1.73.0-11.fc34.x86_64.rpm 175 kB/s | 13 kB 00:00 (7/183): boost-chrono-1.73.0-11.fc34.x86_64.rpm 917 kB/s | 26 kB 00:00 (8/183): boost-container-1.73.0-11.fc34.x86_64. 1.6 MB/s | 38 kB 00:00 (9/183): boost-contract-1.73.0-11.fc34.x86_64.r 2.6 MB/s | 48 kB 00:00 (10/183): boost-coroutine-1.73.0-11.fc34.x86_64 2.2 MB/s | 34 kB 00:00 (11/183): boost-context-1.73.0-11.fc34.x86_64.r 377 kB/s | 16 kB 00:00 (12/183): boost-date-time-1.73.0-11.fc34.x86_64 770 kB/s | 15 kB 00:00 (13/183): boost-fiber-1.73.0-11.fc34.x86_64.rpm 1.9 MB/s | 41 kB 00:00 (14/183): boost-filesystem-1.73.0-11.fc34.x86_6 3.3 MB/s | 57 kB 00:00 (15/183): boost-iostreams-1.73.0-11.fc34.x86_64 1.3 MB/s | 39 kB 00:00 (16/183): boost-graph-1.73.0-11.fc34.x86_64.rpm 2.5 MB/s | 104 kB 00:00 (17/183): boost-locale-1.73.0-11.fc34.x86_64.rp 7.6 MB/s | 222 kB 00:00 (18/183): boost-math-1.73.0-11.fc34.x86_64.rpm 8.7 MB/s | 214 kB 00:00 (19/183): boost-log-1.73.0-11.fc34.x86_64.rpm 8.0 MB/s | 415 kB 00:00 (20/183): boost-nowide-1.73.0-11.fc34.x86_64.rp 1.7 MB/s | 17 kB 00:00 (21/183): boost-program-options-1.73.0-11.fc34. 3.9 MB/s | 110 kB 00:00 (22/183): boost-numpy3-1.73.0-11.fc34.x86_64.rp 912 kB/s | 29 kB 00:00 (23/183): boost-python3-1.73.0-11.fc34.x86_64.r 1.6 MB/s | 98 kB 00:00 (24/183): boost-random-1.73.0-11.fc34.x86_64.rp 429 kB/s | 26 kB 00:00 (25/183): boost-devel-1.73.0-11.fc34.x86_64.rpm 40 MB/s | 11 MB 00:00 (26/183): 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llvm-test-11.1.0-0.2.rc2.fc34.x86_64 41 MB/s | 93 MB 00:02 -------------------------------------------------------------------------------- Total 66 MB/s | 390 MB 00:05 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: copy-jdk-configs-3.7-7.fc33.noarch 1/1 Running scriptlet: java-11-openjdk-headless-1:11.0.10.0.8-0.2.ea.fc34.x 1/1 Preparing : 1/1 Installing : boost-system-1.73.0-11.fc34.x86_64 1/183 Installing : boost-chrono-1.73.0-11.fc34.x86_64 2/183 Installing : cmake-filesystem-3.19.3-1.fc34.x86_64 3/183 Installing : boost-thread-1.73.0-11.fc34.x86_64 4/183 Installing : boost-filesystem-1.73.0-11.fc34.x86_64 5/183 Installing : libicu-67.1-4.fc33.x86_64 6/183 Installing : boost-regex-1.73.0-11.fc34.x86_64 7/183 Installing : zlib-devel-1.2.11-23.fc34.x86_64 8/183 Installing : xorg-x11-proto-devel-2019.1-5.fc34.noarch 9/183 Installing : libpng-2:1.6.37-6.fc34.x86_64 10/183 Installing : freetype-2.10.4-1.fc34.x86_64 11/183 Installing : boost-date-time-1.73.0-11.fc34.x86_64 12/183 Installing : boost-context-1.73.0-11.fc34.x86_64 13/183 Installing : libquadmath-11.0.0-0.16.fc34.x86_64 14/183 Installing : libmpc-1.2.1-1.fc34.x86_64 15/183 Installing : 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71/183 Verifying : giflib-5.2.1-6.fc33.x86_64 72/183 Verifying : glib2-2.67.1-2.fc34.x86_64 73/183 Verifying : glib2-devel-2.67.1-2.fc34.x86_64 74/183 Verifying : glibc-devel-2.32.9000-26.fc34.x86_64 75/183 Verifying : glibc-headers-x86-2.32.9000-26.fc34.noarch 76/183 Verifying : gnutls-3.6.15-2.fc34.x86_64 77/183 Verifying : graphite2-1.3.14-6.fc34.x86_64 78/183 Verifying : hamcrest-core-1.3-30.fc33.noarch 79/183 Verifying : harfbuzz-2.7.4-1.fc34.x86_64 80/183 Verifying : inchi-devel-1.0.5-10.fc33.x86_64 81/183 Verifying : inchi-libs-1.0.5-10.fc33.x86_64 82/183 Verifying : isl-0.16.1-12.fc33.x86_64 83/183 Verifying : java-11-openjdk-1:11.0.10.0.8-0.2.ea.fc34.x86_64 84/183 Verifying : java-11-openjdk-devel-1:11.0.10.0.8-0.2.ea.fc34. 85/183 Verifying : java-11-openjdk-headless-1:11.0.10.0.8-0.2.ea.fc 86/183 Verifying : javapackages-filesystem-5.3.0-14.fc34.noarch 87/183 Verifying : jsoncpp-1.9.4-2.fc34.x86_64 88/183 Verifying : junit-1:4.13-2.fc34.noarch 89/183 Verifying : kernel-headers-5.11.0-0.rc4.git0.1.fc34.x86_64 90/183 Verifying : keyutils-libs-devel-1.6.1-1.fc34.x86_64 91/183 Verifying : krb5-devel-1.19-0.beta2.1.fc34.x86_64 92/183 Verifying : langpacks-core-font-en-3.0-6.fc34.noarch 93/183 Verifying : lcms2-2.11-2.fc33.x86_64 94/183 Verifying : libX11-1.7.0-2.fc34.x86_64 95/183 Verifying : libX11-common-1.7.0-2.fc34.noarch 96/183 Verifying : libX11-devel-1.7.0-2.fc34.x86_64 97/183 Verifying : libX11-xcb-1.7.0-2.fc34.x86_64 98/183 Verifying : libXau-1.0.9-5.fc34.x86_64 99/183 Verifying : libXau-devel-1.0.9-5.fc34.x86_64 100/183 Verifying : libXcomposite-0.4.5-4.fc34.x86_64 101/183 Verifying : libXext-1.3.4-5.fc34.x86_64 102/183 Verifying : libXext-devel-1.3.4-5.fc34.x86_64 103/183 Verifying : libXi-1.7.10-5.fc34.x86_64 104/183 Verifying : libXrender-0.9.10-13.fc34.x86_64 105/183 Verifying : libXrender-devel-0.9.10-13.fc34.x86_64 106/183 Verifying : libXtst-1.2.3-13.fc34.x86_64 107/183 Verifying : libblkid-devel-2.36.1-3.fc34.x86_64 108/183 Verifying : libcom_err-devel-1.45.6-4.fc33.x86_64 109/183 Verifying : libedit-3.1-33.20191231cvs.fc33.x86_64 110/183 Verifying : libedit-devel-3.1-33.20191231cvs.fc33.x86_64 111/183 Verifying : libevent-2.1.12-2.fc34.x86_64 112/183 Verifying : libffi-devel-3.1-27.fc34.x86_64 113/183 Verifying : libfontenc-1.1.3-14.fc34.x86_64 114/183 Verifying : libgfortran-11.0.0-0.16.fc34.x86_64 115/183 Verifying : libicu-67.1-4.fc33.x86_64 116/183 Verifying : libicu-devel-67.1-4.fc33.x86_64 117/183 Verifying : libjpeg-turbo-2.0.5-5.fc33.x86_64 118/183 Verifying : libkadm5-1.19-0.beta2.1.fc34.x86_64 119/183 Verifying : libmount-devel-2.36.1-3.fc34.x86_64 120/183 Verifying : libmpc-1.2.1-1.fc34.x86_64 121/183 Verifying : libpng-2:1.6.37-6.fc34.x86_64 122/183 Verifying : libpng-devel-2:1.6.37-6.fc34.x86_64 123/183 Verifying : libpq-13.1-1.fc34.x86_64 124/183 Verifying : libpq-devel-13.1-1.fc34.x86_64 125/183 Verifying : libquadmath-11.0.0-0.16.fc34.x86_64 126/183 Verifying : libquadmath-devel-11.0.0-0.16.fc34.x86_64 127/183 Verifying : libselinux-devel-3.2-0.rc1.1.fc34.x86_64 128/183 Verifying : libsepol-devel-3.2-0.rc1.1.fc34.x86_64 129/183 Verifying : libstdc++-devel-11.0.0-0.16.fc34.x86_64 130/183 Verifying : libtextstyle-0.21-3.fc34.x86_64 131/183 Verifying : libuv-1:1.40.0-1.fc34.x86_64 132/183 Verifying : libverto-devel-0.3.1-2.fc34.x86_64 133/183 Verifying : libxcb-1.13.1-6.fc34.x86_64 134/183 Verifying : libxcb-devel-1.13.1-6.fc34.x86_64 135/183 Verifying : libxcrypt-devel-4.4.17-1.fc34.x86_64 136/183 Verifying : libxml2-devel-2.9.10-9.fc34.x86_64 137/183 Verifying : lksctp-tools-1.0.18-7.fc34.x86_64 138/183 Verifying : llvm-11.1.0-0.2.rc2.fc34.x86_64 139/183 Verifying : llvm-devel-11.1.0-0.2.rc2.fc34.x86_64 140/183 Verifying : llvm-libs-11.1.0-0.2.rc2.fc34.x86_64 141/183 Verifying : llvm-static-11.1.0-0.2.rc2.fc34.x86_64 142/183 Verifying : llvm-test-11.1.0-0.2.rc2.fc34.x86_64 143/183 Verifying : lua-5.4.2-1.fc34.x86_64 144/183 Verifying : lua-posix-35.0-2.fc33.x86_64 145/183 Verifying : m4-1.4.18-16.fc34.x86_64 146/183 Verifying : ncurses-c++-libs-6.2-3.20200222.fc33.x86_64 147/183 Verifying : ncurses-devel-6.2-3.20200222.fc33.x86_64 148/183 Verifying : nettle-3.7-1.fc34.x86_64 149/183 Verifying : openblas-0.3.12-1.fc34.x86_64 150/183 Verifying : openblas-openmp-0.3.12-1.fc34.x86_64 151/183 Verifying : pcre-cpp-8.44-3.fc34.x86_64 152/183 Verifying : pcre-devel-8.44-3.fc34.x86_64 153/183 Verifying : pcre-utf16-8.44-3.fc34.x86_64 154/183 Verifying : pcre-utf32-8.44-3.fc34.x86_64 155/183 Verifying : pcre2-devel-10.36-2.fc34.x86_64 156/183 Verifying : pcre2-utf16-10.36-2.fc34.x86_64 157/183 Verifying : pcre2-utf32-10.36-2.fc34.x86_64 158/183 Verifying : pixman-0.40.0-2.fc33.x86_64 159/183 Verifying : pixman-devel-0.40.0-2.fc33.x86_64 160/183 Verifying : postgresql-server-devel-12.4-3.fc34.x86_64 161/183 Verifying : python-pip-wheel-20.3.3-3.fc34.noarch 162/183 Verifying : python-rpm-macros-3.9-11.fc34.noarch 163/183 Verifying : python-setuptools-wheel-51.1.2-1.fc34.noarch 164/183 Verifying : python3-3.9.1-3.fc34.x86_64 165/183 Verifying : python3-devel-3.9.1-3.fc34.x86_64 166/183 Verifying : python3-libs-3.9.1-3.fc34.x86_64 167/183 Verifying : python3-lit-0.11.1-2.rc2.fc34.noarch 168/183 Verifying : python3-numpy-1:1.20.0-0.1.rc2.fc34.x86_64 169/183 Verifying : python3-rpm-generators-11-12.fc34.noarch 170/183 Verifying : python3-rpm-macros-3.9-11.fc34.noarch 171/183 Verifying : python3-setuptools-51.1.2-1.fc34.noarch 172/183 Verifying : rhash-1.4.0-2.fc33.x86_64 173/183 Verifying : swig-4.0.2-3.fc34.x86_64 174/183 Verifying : ttmkfdir-3.0.9-62.fc33.x86_64 175/183 Verifying : tzdata-java-2020f-1.fc34.noarch 176/183 Verifying : vim-filesystem-2:8.2.2311-1.fc34.noarch 177/183 Verifying : xml-common-0.6.3-55.fc33.noarch 178/183 Verifying : xorg-x11-font-utils-1:7.5-47.fc34.x86_64 179/183 Verifying : xorg-x11-fonts-Type1-7.5-26.fc34.noarch 180/183 Verifying : xorg-x11-proto-devel-2019.1-5.fc34.noarch 181/183 Verifying : xz-devel-5.2.5-4.fc34.x86_64 182/183 Verifying : zlib-devel-1.2.11-23.fc34.x86_64 183/183 Installed: alsa-lib-1.2.4-4.fc34.x86_64 annobin-9.58-1.fc34.x86_64 avahi-libs-0.8-6.fc34.x86_64 bison-3.7.4-1.fc34.x86_64 boost-1.73.0-11.fc34.x86_64 boost-atomic-1.73.0-11.fc34.x86_64 boost-chrono-1.73.0-11.fc34.x86_64 boost-container-1.73.0-11.fc34.x86_64 boost-context-1.73.0-11.fc34.x86_64 boost-contract-1.73.0-11.fc34.x86_64 boost-coroutine-1.73.0-11.fc34.x86_64 boost-date-time-1.73.0-11.fc34.x86_64 boost-devel-1.73.0-11.fc34.x86_64 boost-fiber-1.73.0-11.fc34.x86_64 boost-filesystem-1.73.0-11.fc34.x86_64 boost-graph-1.73.0-11.fc34.x86_64 boost-iostreams-1.73.0-11.fc34.x86_64 boost-locale-1.73.0-11.fc34.x86_64 boost-log-1.73.0-11.fc34.x86_64 boost-math-1.73.0-11.fc34.x86_64 boost-nowide-1.73.0-11.fc34.x86_64 boost-numpy3-1.73.0-11.fc34.x86_64 boost-program-options-1.73.0-11.fc34.x86_64 boost-python3-1.73.0-11.fc34.x86_64 boost-random-1.73.0-11.fc34.x86_64 boost-regex-1.73.0-11.fc34.x86_64 boost-serialization-1.73.0-11.fc34.x86_64 boost-stacktrace-1.73.0-11.fc34.x86_64 boost-system-1.73.0-11.fc34.x86_64 boost-test-1.73.0-11.fc34.x86_64 boost-thread-1.73.0-11.fc34.x86_64 boost-timer-1.73.0-11.fc34.x86_64 boost-type_erasure-1.73.0-11.fc34.x86_64 boost-wave-1.73.0-11.fc34.x86_64 brotli-1.0.9-3.fc34.x86_64 brotli-devel-1.0.9-3.fc34.x86_64 bzip2-devel-1.0.8-4.fc33.x86_64 cairo-1.17.4-1.fc34.x86_64 cairo-devel-1.17.4-1.fc34.x86_64 catch-devel-2.13.4-1.fc34.x86_64 chrpath-0.16-14.fc34.x86_64 clang-11.1.0-0.3.rc2.fc34.x86_64 clang-devel-11.1.0-0.3.rc2.fc34.x86_64 clang-libs-11.1.0-0.3.rc2.fc34.x86_64 clang-resource-filesystem-11.1.0-0.3.rc2.fc34.x86_64 clang-tools-extra-11.1.0-0.3.rc2.fc34.x86_64 cmake-3.19.3-1.fc34.x86_64 cmake-data-3.19.3-1.fc34.noarch cmake-filesystem-3.19.3-1.fc34.x86_64 cmake-rpm-macros-3.19.3-1.fc34.noarch copy-jdk-configs-3.7-7.fc33.noarch cpp-11.0.0-0.16.fc34.x86_64 cups-libs-1:2.3.3op1-1.fc34.x86_64 dbus-libs-1:1.12.20-2.fc33.x86_64 dejavu-sans-fonts-2.37-15.fc34.noarch eigen3-devel-3.3.9-3.fc34.noarch emacs-filesystem-1:27.1-2.fc34.noarch flex-2.6.4-6.fc34.x86_64 flexiblas-3.0.4-2.fc34.x86_64 flexiblas-netlib-3.0.4-2.fc34.x86_64 flexiblas-openblas-openmp-3.0.4-2.fc34.x86_64 fontconfig-2.13.93-4.fc34.x86_64 fontconfig-devel-2.13.93-4.fc34.x86_64 fonts-filesystem-1:2.0.5-4.fc33.noarch freetype-2.10.4-1.fc34.x86_64 freetype-devel-2.10.4-1.fc34.x86_64 gcc-11.0.0-0.16.fc34.x86_64 gcc-c++-11.0.0-0.16.fc34.x86_64 gdbm-libs-1:1.19-1.fc34.x86_64 gettext-0.21-3.fc34.x86_64 gettext-libs-0.21-3.fc34.x86_64 giflib-5.2.1-6.fc33.x86_64 glib2-2.67.1-2.fc34.x86_64 glib2-devel-2.67.1-2.fc34.x86_64 glibc-devel-2.32.9000-26.fc34.x86_64 glibc-headers-x86-2.32.9000-26.fc34.noarch gnutls-3.6.15-2.fc34.x86_64 graphite2-1.3.14-6.fc34.x86_64 hamcrest-core-1.3-30.fc33.noarch harfbuzz-2.7.4-1.fc34.x86_64 inchi-devel-1.0.5-10.fc33.x86_64 inchi-libs-1.0.5-10.fc33.x86_64 isl-0.16.1-12.fc33.x86_64 java-11-openjdk-1:11.0.10.0.8-0.2.ea.fc34.x86_64 java-11-openjdk-devel-1:11.0.10.0.8-0.2.ea.fc34.x86_64 java-11-openjdk-headless-1:11.0.10.0.8-0.2.ea.fc34.x86_64 javapackages-filesystem-5.3.0-14.fc34.noarch jsoncpp-1.9.4-2.fc34.x86_64 junit-1:4.13-2.fc34.noarch kernel-headers-5.11.0-0.rc4.git0.1.fc34.x86_64 keyutils-libs-devel-1.6.1-1.fc34.x86_64 krb5-devel-1.19-0.beta2.1.fc34.x86_64 langpacks-core-font-en-3.0-6.fc34.noarch lcms2-2.11-2.fc33.x86_64 libX11-1.7.0-2.fc34.x86_64 libX11-common-1.7.0-2.fc34.noarch libX11-devel-1.7.0-2.fc34.x86_64 libX11-xcb-1.7.0-2.fc34.x86_64 libXau-1.0.9-5.fc34.x86_64 libXau-devel-1.0.9-5.fc34.x86_64 libXcomposite-0.4.5-4.fc34.x86_64 libXext-1.3.4-5.fc34.x86_64 libXext-devel-1.3.4-5.fc34.x86_64 libXi-1.7.10-5.fc34.x86_64 libXrender-0.9.10-13.fc34.x86_64 libXrender-devel-0.9.10-13.fc34.x86_64 libXtst-1.2.3-13.fc34.x86_64 libblkid-devel-2.36.1-3.fc34.x86_64 libcom_err-devel-1.45.6-4.fc33.x86_64 libedit-3.1-33.20191231cvs.fc33.x86_64 libedit-devel-3.1-33.20191231cvs.fc33.x86_64 libevent-2.1.12-2.fc34.x86_64 libffi-devel-3.1-27.fc34.x86_64 libfontenc-1.1.3-14.fc34.x86_64 libgfortran-11.0.0-0.16.fc34.x86_64 libicu-67.1-4.fc33.x86_64 libicu-devel-67.1-4.fc33.x86_64 libjpeg-turbo-2.0.5-5.fc33.x86_64 libkadm5-1.19-0.beta2.1.fc34.x86_64 libmount-devel-2.36.1-3.fc34.x86_64 libmpc-1.2.1-1.fc34.x86_64 libpng-2:1.6.37-6.fc34.x86_64 libpng-devel-2:1.6.37-6.fc34.x86_64 libpq-13.1-1.fc34.x86_64 libpq-devel-13.1-1.fc34.x86_64 libquadmath-11.0.0-0.16.fc34.x86_64 libquadmath-devel-11.0.0-0.16.fc34.x86_64 libselinux-devel-3.2-0.rc1.1.fc34.x86_64 libsepol-devel-3.2-0.rc1.1.fc34.x86_64 libstdc++-devel-11.0.0-0.16.fc34.x86_64 libtextstyle-0.21-3.fc34.x86_64 libuv-1:1.40.0-1.fc34.x86_64 libverto-devel-0.3.1-2.fc34.x86_64 libxcb-1.13.1-6.fc34.x86_64 libxcb-devel-1.13.1-6.fc34.x86_64 libxcrypt-devel-4.4.17-1.fc34.x86_64 libxml2-devel-2.9.10-9.fc34.x86_64 lksctp-tools-1.0.18-7.fc34.x86_64 llvm-11.1.0-0.2.rc2.fc34.x86_64 llvm-devel-11.1.0-0.2.rc2.fc34.x86_64 llvm-libs-11.1.0-0.2.rc2.fc34.x86_64 llvm-static-11.1.0-0.2.rc2.fc34.x86_64 llvm-test-11.1.0-0.2.rc2.fc34.x86_64 lua-5.4.2-1.fc34.x86_64 lua-posix-35.0-2.fc33.x86_64 m4-1.4.18-16.fc34.x86_64 ncurses-c++-libs-6.2-3.20200222.fc33.x86_64 ncurses-devel-6.2-3.20200222.fc33.x86_64 nettle-3.7-1.fc34.x86_64 openblas-0.3.12-1.fc34.x86_64 openblas-openmp-0.3.12-1.fc34.x86_64 pcre-cpp-8.44-3.fc34.x86_64 pcre-devel-8.44-3.fc34.x86_64 pcre-utf16-8.44-3.fc34.x86_64 pcre-utf32-8.44-3.fc34.x86_64 pcre2-devel-10.36-2.fc34.x86_64 pcre2-utf16-10.36-2.fc34.x86_64 pcre2-utf32-10.36-2.fc34.x86_64 pixman-0.40.0-2.fc33.x86_64 pixman-devel-0.40.0-2.fc33.x86_64 postgresql-server-devel-12.4-3.fc34.x86_64 python-pip-wheel-20.3.3-3.fc34.noarch python-rpm-macros-3.9-11.fc34.noarch python-setuptools-wheel-51.1.2-1.fc34.noarch python3-3.9.1-3.fc34.x86_64 python3-devel-3.9.1-3.fc34.x86_64 python3-libs-3.9.1-3.fc34.x86_64 python3-lit-0.11.1-2.rc2.fc34.noarch python3-numpy-1:1.20.0-0.1.rc2.fc34.x86_64 python3-rpm-generators-11-12.fc34.noarch python3-rpm-macros-3.9-11.fc34.noarch python3-setuptools-51.1.2-1.fc34.noarch rhash-1.4.0-2.fc33.x86_64 swig-4.0.2-3.fc34.x86_64 ttmkfdir-3.0.9-62.fc33.x86_64 tzdata-java-2020f-1.fc34.noarch vim-filesystem-2:8.2.2311-1.fc34.noarch xml-common-0.6.3-55.fc33.noarch xorg-x11-font-utils-1:7.5-47.fc34.x86_64 xorg-x11-fonts-Type1-7.5-26.fc34.noarch xorg-x11-proto-devel-2019.1-5.fc34.noarch xz-devel-5.2.5-4.fc34.x86_64 zlib-devel-1.2.11-23.fc34.x86_64 Complete! Finish: build setup for rdkit-2019.03.3-13.fc34.src.rpm Start: rpmbuild rdkit-2019.03.3-13.fc34.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1611273600 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.3aTAKq + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf rdkit-Release_2019_03_3 + /usr/bin/mkdir -p rdkit-Release_2019_03_3 + cd rdkit-Release_2019_03_3 + /usr/bin/gzip -dc /builddir/build/SOURCES/Release_2019_03_3.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + mv rdkit-Release_2019_03_3 python3 + pushd python3 ~/build/BUILD/rdkit-Release_2019_03_3/python3 ~/build/BUILD/rdkit-Release_2019_03_3 Patch #0 (rdkit-2015.03-use_cairo_backend_on_tests.patch): + echo 'Patch #0 (rdkit-2015.03-use_cairo_backend_on_tests.patch):' + /usr/bin/patch --no-backup-if-mismatch -p1 --fuzz=0 patching file rdkit/Chem/Draw/UnitTestSimilarityMaps.py Hunk #1 succeeded at 169 (offset 71 lines). + echo 'Patch #1 (rdkit-2018.03-do_not_install_sping.patch):' Patch #1 (rdkit-2018.03-do_not_install_sping.patch): + /usr/bin/patch --no-backup-if-mismatch -p1 --fuzz=0 patching file CMakeLists.txt Hunk #1 succeeded at 274 (offset 56 lines). Hunk #2 succeeded at 282 (offset 56 lines). Patch #2 (rdkit-Release_2019_03_3-gcc10.patch): + echo 'Patch #2 (rdkit-Release_2019_03_3-gcc10.patch):' + /usr/bin/patch --no-backup-if-mismatch -p1 --fuzz=0 patching file Code/GraphMol/catch_sgroups.cpp patching file Code/GraphMol/testSGroup.cpp + rm -rf rdkit/sping + cp -pr license.txt ReleaseNotes.md ../ + popd ~/build/BUILD/rdkit-Release_2019_03_3 + find python3 -name '*.py' + xargs sed -i '1s|^#!.*|#!/usr/bin/python3|' + find python3 -name test_list.py + xargs sed -i 's/"python"/"python3"/g' + find python3 -name test_list.py + xargs sed -i 's/'\''python'\''/'\''python3'\''/g' + sed -i.orig s/python/python3/g python3/Projects/DbCLI/TestDbCLI.py + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.0JflAz + umask 022 + cd /builddir/build/BUILD ~/build/BUILD/rdkit-Release_2019_03_3/python3 ~/build/BUILD/rdkit-Release_2019_03_3 + cd rdkit-Release_2019_03_3 + export 'CXXFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed' + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed' + pushd python3 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + /usr/bin/cmake -S . -B x86_64-redhat-linux-gnu -DCMAKE_C_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_CXX_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_Fortran_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON -DCMAKE_INSTALL_DO_STRIP:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=/usr -DINCLUDE_INSTALL_DIR:PATH=/usr/include -DLIB_INSTALL_DIR:PATH=/usr/lib64 -DSYSCONF_INSTALL_DIR:PATH=/etc -DSHARE_INSTALL_PREFIX:PATH=/usr/share -DLIB_SUFFIX=64 -DBUILD_SHARED_LIBS:BOOL=ON -D RDK_INSTALL_INTREE=OFF -D CMAKE_BUILD_TYPE=RelWithDebInfo -D RDK_BUILD_INCHI_SUPPORT:BOOL=ON -D RDK_BUILD_THREADSAFE_SSS:BOOL=ON -D RDK_BUILD_CAIRO_SUPPORT:BOOL=ON -D RDK_BUILD_DESCRIPTORS3D:BOOL=OFF -D RDK_BUILD_COORDGEN_SUPPORT:BOOL=OFF -D RDK_BUILD_MOLINTERCHANGE_SUPPORT:BOOL=OFF -D RDK_BUILD_PGSQL:BOOL=ON -D RDK_PGSQL_STATIC:BOOL=OFF -D RDK_INSTALL_STATIC_LIBS:BOOL=OFF -D RDK_USE_FLEXBISON:BOOL=OFF -D RDK_TEST_MULTITHREADED:BOOL=ON -D PYTHON_EXECUTABLE:FILEPATH=/usr/bin/python3 -D RDK_BOOST_PYTHON3_NAME=python39 -D CATCH_DIR:FILEPATH=/usr/include/catch2 . -B . -- The C compiler identification is GNU 11.0.0 -- The CXX compiler identification is GNU 11.0.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/g++ - skipped -- 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 -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - little endian -- Found Catch2: /usr/include/catch2 CATCH: /usr/include/catch2 CMake Warning (dev) at /usr/share/cmake/Modules/FindPackageHandleStandardArgs.cmake:426 (message): The package name passed to `find_package_handle_standard_args` (INCHI) does not match the name of the calling package (Inchi). This can lead to problems in calling code that expects `find_package` result variables (e.g., `_FOUND`) to follow a certain pattern. Call Stack (most recent call first): Code/cmake/Modules/FindInchi.cmake:21 (find_package_handle_standard_args) CMakeLists.txt:216 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. -- Found INCHI: /usr/lib64/libinchi.so -- Found PythonInterp: /usr/bin/python3 (found version "3.9.1") -- Found PythonLibs: /usr/lib64/libpython3.9.so (found version "3.9.1") Python Install directory /usr/lib64/python3.9/site-packages PYTHON Py_ENABLE_SHARED: 1 PYTHON USING LINK LINE: -pthread -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- 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 -- Found Boost: /usr/include (found suitable version "1.73.0", minimum required is "1.56.0") found components: serialization -- Found PostgreSQL: /usr/lib64/libpq.so (found version "13.1") == Using strict rotor definition -- Found Boost: /usr/include (found suitable version "1.73.0", minimum required is "1.56.0") found components: system iostreams regex == Updating Filters.cpp from pains file == Done updating pains files -- Found PkgConfig: /usr/bin/pkg-config (found version "1.7.3") -- Checking for module 'cairo' -- Found cairo, version 1.17.4 -- Found Cairo: /usr/include/cairo postgres: /usr/include;/usr/include/pgsql/server ===================================================================== After building, check /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/pgsql_install.sh for correctness of installation paths. If everything is OK, gain administrator privileges, stop the PostgreSQL service, run /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/pgsql_install.sh to install the PostgreSQL RDKit cartridge, then start again the PostgreSQL service ===================================================================== -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_CXX_FLAGS_RELEASE CMAKE_C_FLAGS_RELEASE CMAKE_Fortran_FLAGS_RELEASE CMAKE_INSTALL_DO_STRIP INCLUDE_INSTALL_DIR LIB_INSTALL_DIR SHARE_INSTALL_PREFIX SYSCONF_INSTALL_DIR -- Build files have been written to: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 + make -j2 /usr/bin/cmake -S/builddir/build/BUILD/rdkit-Release_2019_03_3/python3 -B/builddir/build/BUILD/rdkit-Release_2019_03_3/python3 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/CMakeFiles /builddir/build/BUILD/rdkit-Release_2019_03_3/python3//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[1]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' 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[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/catch /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/catch /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/catch/CMakeFiles/catch.dir/DependInfo.cmake --color= make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake --color= Scanning dependencies of target catch make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/catch/CMakeFiles/catch.dir/build.make External/catch/CMakeFiles/catch.dir/build Scanning dependencies of target inchi_support make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'External/catch/CMakeFiles/catch.dir/build'. make[2]: Leaving directory 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/builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/CoordGen /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/CoordGen /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' Scanning dependencies of target coordgen_support [ 0%] Built target inchi_support make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/depend make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 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/usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/DependInfo.cmake --color= Scanning dependencies of target RDStreams make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' Scanning dependencies of target hc make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 0%] Building CXX object Code/RDStreams/CMakeFiles/RDStreams.dir/streams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDStreams && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RDSTREAMS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDStreams_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDStreams.dir/streams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDStreams/streams.cpp [ 0%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hc.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh && /usr/bin/gcc -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables 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-fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/hc.dir/hcdriver.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh/hcdriver.c [ 0%] Linking C shared library ../../../../lib/libRDKithc.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/hc.dir/link.txt --verbose=1 /usr/bin/gcc -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKithc.so.1 -o ../../../../lib/libRDKithc.so.1.2019.03.3 CMakeFiles/hc.dir/hc.c.o CMakeFiles/hc.dir/hcdriver.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_symlink_library ../../../../lib/libRDKithc.so.1.2019.03.3 ../../../../lib/libRDKithc.so.1 ../../../../lib/libRDKithc.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 0%] Built target hc make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/CMakeFiles/RDGeneral.dir/DependInfo.cmake --color= Scanning dependencies of target RDGeneral make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Invariant.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/g++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/Invariant.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/Invariant.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/types.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/g++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/types.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/types.cpp [ 1%] Linking CXX shared library ../../lib/libRDKitRDStreams.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDStreams && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDStreams.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitRDStreams.so.1 -o ../../lib/libRDKitRDStreams.so.1.2019.03.3 CMakeFiles/RDStreams.dir/streams.cpp.o -lboost_system -lboost_iostreams -lboost_regex -lboost_system -lboost_iostreams -lboost_regex [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/utils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/g++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/utils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/utils.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDStreams && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDStreams.so.1.2019.03.3 ../../lib/libRDKitRDStreams.so.1 ../../lib/libRDKitRDStreams.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 1%] Built target RDStreams [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/g++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/RDLog.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/RDLog.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Dict.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/g++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/Dict.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/Dict.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/g++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/LocaleSwitcher.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/versions.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/g++ -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/versions.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/versions.cpp [ 2%] Linking CXX shared library ../../lib/libRDKitRDGeneral.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeneral.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitRDGeneral.so.1 -o ../../lib/libRDKitRDGeneral.so.1.2019.03.3 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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeneral.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1 ../../lib/libRDKitRDGeneral.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 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[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake --color= make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake --color= Scanning dependencies of target EigenSolvers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' Scanning dependencies of target DataStructs make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 2%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers && /usr/bin/g++ -DEigenSolvers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_EIGENSOLVERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/BitVect.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/BitVect.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/SparseBitVect.cpp [ 2%] Linking CXX shared library ../../../lib/libRDKitEigenSolvers.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_link_script CMakeFiles/EigenSolvers.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitEigenSolvers.so.1 -o ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1 ../../../lib/libRDKitEigenSolvers.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 2%] Built target EigenSolvers make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake --color= Scanning dependencies of target RDBoost make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 2%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost && /usr/bin/g++ -DRDBoost_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDBOOST_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDBoost.dir/Wrap.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/ExplicitBitVect.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.cpp:15: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 2%] Linking CXX shared library ../../lib/libRDKitRDBoost.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDBoost.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitRDBoost.so.1 -o ../../lib/libRDKitRDBoost.so.1.2019.03.3 CMakeFiles/RDBoost.dir/Wrap.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDBoost.so.1.2019.03.3 ../../lib/libRDKitRDBoost.so.1 ../../lib/libRDKitRDBoost.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 2%] Built target RDBoost make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake --color= Scanning dependencies of target testRDValue make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testRDValue.dir/testRDValue.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/testRDValue.cpp [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/Utils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Utils.cpp In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/testRDValue.cpp:5: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/StreamOps.h: In function 'bool RDKit::isSerializable(const RDKit::Dict::Pair&, const CustomPropHandlerVec&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/StreamOps.h:353:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 353 | } | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/StreamOps.h:354:5: note: here 354 | default: | ^~~~~~~ [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/base64.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/base64.cpp [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/BitOps.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/BitOps.cpp [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/DiscreteDistMat.cpp [ 3%] Linking CXX executable testRDValue cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDValue.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testRDValue.dir/testRDValue.cpp.o -o testRDValue -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/DiscreteValueVect.cpp [ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/FPBReader.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/FPBReader.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/FPBReader.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 3%] Built target testRDValue make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake --color= Scanning dependencies of target testDict make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testDict.dir/testDict.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/testDict.cpp [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/MultiFPBReader.cpp [ 4%] Linking CXX shared library ../../lib/libRDKitDataStructs.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/DataStructs.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitDataStructs.so.1 -o ../../lib/libRDKitDataStructs.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 5%] Linking CXX executable testDict cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testDict.dir/testDict.cpp.o -o testDict -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 5%] Built target testDict make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= Scanning dependencies of target rdBase make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 5%] Building CXX object Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/RDBase.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdBase_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdBase.dir/RDBase.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap/RDBase.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1 ../../lib/libRDKitDataStructs.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 5%] Built target DataStructs make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake --color= Scanning dependencies of target testMatrices make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 5%] Building CXX object Code/Numerics/CMakeFiles/testMatrices.dir/testMatrices.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMatrices.dir/testMatrices.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/testMatrices.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 5%] Linking CXX executable testMatrices cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatrices.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMatrices.dir/testMatrices.cpp.o -o testMatrices -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 5%] Built target testMatrices make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake --color= Scanning dependencies of target Catalogs make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 5%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/Catalog.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs && /usr/bin/g++ -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Catalogs.dir/Catalog.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs/Catalog.cpp [ 5%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs && /usr/bin/g++ -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs/CatalogParams.cpp [ 5%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs && /usr/bin/g++ -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs/CatalogEntry.cpp [ 5%] Linking CXX shared library ../../lib/libRDKitCatalogs.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Catalogs.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitCatalogs.so.1 -o ../../lib/libRDKitCatalogs.so.1.2019.03.3 CMakeFiles/Catalogs.dir/Catalog.cpp.o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../lib/libRDKitCatalogs.so.1 ../../lib/libRDKitCatalogs.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 5%] Built target Catalogs make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Query /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Query /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake --color= Scanning dependencies of target testQuery make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 5%] Building CXX object Code/Query/CMakeFiles/testQuery.dir/test.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Query && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testQuery.dir/test.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Query/test.cpp [ 6%] Linking CXX executable testQuery cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Query && /usr/bin/cmake -E cmake_link_script CMakeFiles/testQuery.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testQuery.dir/test.cpp.o -o testQuery -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 6%] Built target testQuery make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= Scanning dependencies of target testMatCalc make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 6%] Building CXX object Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/testMatCalc.cpp [ 7%] Linking CXX executable testMatCalc cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatCalc.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -o testMatCalc -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 7%] Built target testMatCalc make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake --color= Scanning dependencies of target rdMetricMatrixCalc make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 7%] Building CXX object Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMetricMatrixCalc_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 7%] Linking CXX shared module ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMetricMatrixCalc.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 7%] Built target rdMetricMatrixCalc make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake --color= Scanning dependencies of target SimDivPickers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 7%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/DistPicker.cpp [ 7%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/MaxMinPicker.cpp [ 8%] Linking CXX shared module ../../../rdkit/rdBase.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdBase.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/rdBase.so CMakeFiles/rdBase.dir/RDBase.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 8%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/HierarchicalClusterPicker.cpp [ 9%] Linking CXX shared library ../../lib/libRDKitSimDivPickers.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/SimDivPickers.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitSimDivPickers.so.1 -o ../../lib/libRDKitSimDivPickers.so.1.2019.03.3 CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../lib/libRDKithc.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitSimDivPickers.so.1.2019.03.3 ../../lib/libRDKitSimDivPickers.so.1 ../../lib/libRDKitSimDivPickers.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Built target SimDivPickers make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake --color= Scanning dependencies of target Clustering make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Building CXX object Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh && /usr/bin/g++ -DClustering_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Clustering.dir/Clustering.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh/Clustering.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh/Clustering.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 9%] Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/Clustering.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/ML/Cluster/Clustering.so CMakeFiles/Clustering.dir/Clustering.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKithc.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Built target Clustering make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= Scanning dependencies of target InfoTheory make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Building CXX object Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory && /usr/bin/g++ -DInfoTheory_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_INFOTHEORY_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/InfoBitRanker.cpp [ 9%] Linking CXX shared library ../../../lib/libRDKitInfoTheory.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_link_script CMakeFiles/InfoTheory.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitInfoTheory.so.1 -o ../../../lib/libRDKitInfoTheory.so.1.2019.03.3 CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Built target rdBase make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake --color= Scanning dependencies of target RDGeometryLib make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/point.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/g++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/point.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitInfoTheory.so.1.2019.03.3 ../../../lib/libRDKitInfoTheory.so.1 ../../../lib/libRDKitInfoTheory.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Built target InfoTheory make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake --color= Scanning dependencies of target testMultiFPB make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Building CXX object Code/DataStructs/CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testMultiFPB.cpp [ 9%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/g++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Transform2D.cpp [ 9%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/g++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Transform3D.cpp [ 9%] Linking CXX executable testMultiFPB cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultiFPB.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -o testMultiFPB -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 9%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/g++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/UniformGrid3D.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Built target testMultiFPB make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake --color= Scanning dependencies of target testFPB make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] Building CXX object Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testFPB.dir/testFPB.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testFPB.cpp [ 9%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/g++ -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/GridUtils.cpp [ 10%] Linking CXX shared library ../../lib/libRDKitRDGeometryLib.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeometryLib.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitRDGeometryLib.so.1 -o ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 10%] Linking CXX executable testFPB cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFPB.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testFPB.dir/testFPB.cpp.o -o testFPB -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1 ../../lib/libRDKitRDGeometryLib.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 10%] Built target RDGeometryLib make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake --color= Scanning dependencies of target testDataStructs make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 10%] Building CXX object Code/DataStructs/CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/g++ -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testDatastructs.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 10%] Built target testFPB make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake --color= Scanning dependencies of target cDataStructs make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 11%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/DataStructs.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/DataStructs.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testDatastructs.cpp: In function 'void test5DiscreteVectOps2()': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testDatastructs.cpp:22: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/DiscreteValueVect.h:50:3: note: because 'RDKit::DiscreteValueVect' has user-provided 'RDKit::DiscreteValueVect::DiscreteValueVect(const RDKit::DiscreteValueVect&)' 50 | DiscreteValueVect(const DiscreteValueVect &other); | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testDatastructs.cpp:22: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/DiscreteValueVect.h:50:3: note: because 'RDKit::DiscreteValueVect' has user-provided 'RDKit::DiscreteValueVect::DiscreteValueVect(const RDKit::DiscreteValueVect&)' 50 | DiscreteValueVect(const DiscreteValueVect &other); | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testDatastructs.cpp: In function 'void test6SparseIntVect()': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testDatastructs.cpp:26: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testDatastructs.cpp:26: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testDatastructs.cpp:26: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/testDatastructs.cpp:26: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/DataStructs.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 11%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/DiscreteValueVect.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/DiscreteValueVect.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 11%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/SparseIntVect.cpp [ 12%] Linking CXX executable testDataStructs cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDataStructs.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -o testDataStructs -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/SparseIntVect.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 12%] Built target testDataStructs make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= Scanning dependencies of target testGrid make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 12%] Building CXX object Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testGrid.dir/testGrid.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/testGrid.cpp [ 12%] Linking CXX executable testGrid cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGrid.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testGrid.dir/testGrid.cpp.o -o testGrid -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 12%] Built target testGrid make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target testTransforms make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 12%] Building CXX object Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testTransforms.dir/testTransforms.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/testTransforms.cpp [ 13%] Linking CXX executable testTransforms cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTransforms.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testTransforms.dir/testTransforms.cpp.o -o testTransforms -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 13%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_SparseBV.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 13%] Built target testTransforms make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= Scanning dependencies of target rdGeometry make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 14%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdGeometry.dir/Point.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap/Point.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_SparseBV.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap/Point.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 14%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 14%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap/UniformGrid3D.cpp [ 14%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_BitOps.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap/UniformGrid3D.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_BitOps.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 14%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap/rdGeometry.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap/rdGeometry.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 14%] Linking CXX shared module ../../../rdkit/Geometry/rdGeometry.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdGeometry.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/Geometry/rdGeometry.so CMakeFiles/rdGeometry.dir/Point.cpp.o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 15%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_FPB.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 15%] Built target rdGeometry make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= Scanning dependencies of target Alignment make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 15%] Building CXX object Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment && /usr/bin/g++ -DAlignment_EXPORTS -DRDKIT_ALIGNMENT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Alignment.dir/AlignPoints.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/AlignPoints.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_FPB.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 15%] Linking CXX shared library ../../../lib/libRDKitAlignment.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/Alignment.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitAlignment.so.1 -o ../../../lib/libRDKitAlignment.so.1.2019.03.3 CMakeFiles/Alignment.dir/AlignPoints.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../lib/libRDKitAlignment.so.1 ../../../lib/libRDKitAlignment.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 15%] Built target Alignment make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake --color= Scanning dependencies of target testSimDivPickers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 16%] Building CXX object Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/testPickers.cpp [ 16%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_Utils.cpp [ 16%] Linking CXX executable testSimDivPickers cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSimDivPickers.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -o testSimDivPickers -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitSimDivPickers.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread ../../lib/libRDKithc.so.1.2019.03.3 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 16%] Built target testSimDivPickers make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= Scanning dependencies of target rdSimDivPickers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 16%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap/MaxMinPicker.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/wrap_Utils.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 16%] Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/cDataStructs.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap/MaxMinPicker.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 16%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 16%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 16%] Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSimDivPickers.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/SimDivFilters/rdSimDivPickers.so CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitSimDivPickers.so.1.2019.03.3 ../../../lib/libRDKithc.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 16%] Built target rdSimDivPickers make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= Scanning dependencies of target rdInfoTheory make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 16%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 16%] Built target cDataStructs make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= Scanning dependencies of target cQuantize make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 16%] Building CXX object Code/ML/Data/CMakeFiles/cQuantize.dir/cQuantize.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DcQuantize_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/cQuantize.dir/cQuantize.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data/cQuantize.cpp [ 16%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data/cQuantize.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 16%] Linking CXX shared module ../../../rdkit/ML/Data/cQuantize.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data && /usr/bin/cmake -E cmake_link_script CMakeFiles/cQuantize.dir/link.txt --verbose=1 In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/ML/Data/cQuantize.so CMakeFiles/cQuantize.dir/cQuantize.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitInfoTheory.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 16%] Built target cQuantize make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target ChemicalFeatures make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures && /usr/bin/g++ -DChemicalFeatures_EXPORTS -DRDKIT_CHEMICALFEATURES_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/FreeChemicalFeature.cpp [ 17%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp [ 17%] Linking CXX shared library ../../lib/libRDKitChemicalFeatures.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitChemicalFeatures.so.1 -o ../../lib/libRDKitChemicalFeatures.so.1.2019.03.3 CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitChemicalFeatures.so.1.2019.03.3 ../../lib/libRDKitChemicalFeatures.so.1 ../../lib/libRDKitChemicalFeatures.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Built target ChemicalFeatures make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake --color= Scanning dependencies of target GraphMol make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Atom.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Atom.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 18%] Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdInfoTheory.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitInfoTheory.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 18%] Built target rdInfoTheory make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= Scanning dependencies of target testAlignment make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 18%] Building CXX object Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment && /usr/bin/g++ -DRDKIT_ALIGNMENT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testAlignment.dir/testAlignment.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/testAlignment.cpp [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/QueryAtom.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryAtom.cpp [ 18%] Linking CXX executable testAlignment cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAlignment.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testAlignment.dir/testAlignment.cpp.o -o testAlignment -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 18%] Built target testAlignment make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake --color= Scanning dependencies of target rdAlignment make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 18%] Building CXX object Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdAlignment_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap/rdAlignment.cpp [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryBond.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/QueryBond.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryBond.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap/rdAlignment.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 19%] Linking CXX shared module ../../../../rdkit/Numerics/rdAlignment.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdAlignment.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Numerics/rdAlignment.so CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Bond.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Bond.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 19%] Built target rdAlignment make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target testChemicalFeatures make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 19%] Building CXX object Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures && /usr/bin/g++ -DRDKIT_CHEMICALFEATURES_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/testChemicalFeatures.cpp [ 19%] Linking CXX executable testChemicalFeatures cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -o testChemicalFeatures -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitChemicalFeatures.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 19%] Built target testChemicalFeatures [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolOps.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolOps.cpp [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/FindRings.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FindRings.cpp [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/ROMol.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.cpp [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/RWMol.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RWMol.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PeriodicTable.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/atomic_data.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/atomic_data.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/QueryOps.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryOps.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolPickler.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp: In instantiation of 'static RDKit::Atom* RDKit::MolPickler::_addAtomFromPickle(std::istream&, RDKit::ROMol*, RDGeom::Point3D&, int, bool) [with T = int; std::istream = std::basic_istream]': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp:1004:39: required from 'static void RDKit::MolPickler::_depickle(std::istream&, RDKit::ROMol*, int, int) [with T = int; std::istream = std::basic_istream]' /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp:819:57: required from here /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp:1516:37: warning: comparison is always false due to limited range of data type [-Wtype-limits] 1516 | if ((tmpChar < 0 || tmpChar > 127) && version > 9000) { | ~~~~~~~~^~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp: In instantiation of 'static RDKit::Atom* RDKit::MolPickler::_addAtomFromPickle(std::istream&, RDKit::ROMol*, RDGeom::Point3D&, int, bool) [with T = unsigned char; std::istream = std::basic_istream]': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp:1004:39: required from 'static void RDKit::MolPickler::_depickle(std::istream&, RDKit::ROMol*, int, int) [with T = unsigned char; std::istream = std::basic_istream]' /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp:821:63: required from here /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp:1516:37: warning: comparison is always false due to limited range of data type [-Wtype-limits] In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.h:19, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.cpp:12: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/StreamOps.h: In function 'bool RDKit::isSerializable(const RDKit::Dict::Pair&, const CustomPropHandlerVec&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/StreamOps.h:353:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 353 | } | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/StreamOps.h:354:5: note: here 354 | default: | ^~~~~~~ [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Canon.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Canon.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/AtomIterators.cpp [ 20%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/BondIterators.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/BondIterators.cpp [ 21%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Aromaticity.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Aromaticity.cpp [ 21%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Kekulize.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Kekulize.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Kekulize.cpp [ 21%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolDiscriminators.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolDiscriminators.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDiscriminators.cpp [ 21%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ConjugHybrid.cpp [ 21%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AddHs.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/AddHs.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/AddHs.cpp [ 21%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Matrices.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Matrices.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Matrices.cpp [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Chirality.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Chirality.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Chirality.cpp [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RingInfo.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/RingInfo.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RingInfo.cpp [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Conformer.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Conformer.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.cpp [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Renumber.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Renumber.cpp [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/AdjustQuery.cpp [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Resonance.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Resonance.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Resonance.cpp [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/StereoGroup.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/StereoGroup.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StereoGroup.cpp [ 23%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/new_canon.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/new_canon.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Resonance.cpp: In member function 'void RDKit::ConjElectrons::computeMetrics()': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Resonance.cpp:801:33: warning: expression does not compute the number of elements in this array; element type is 'const unsigned int', not 'double' [-Wsizeof-array-div] 801 | const int enSize = sizeof(en) / sizeof(double); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Resonance.cpp:801:35: note: add parentheses around 'sizeof (double)' to silence this warning 801 | const int enSize = sizeof(en) / sizeof(double); | ^~~~~~~~~~~~~~ | ( ) /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Resonance.cpp:792:29: note: array 'en' declared here 792 | static const unsigned int en[] = { | ^~ [ 23%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstanceGroup.cpp [ 23%] Linking CXX shared library ../../lib/libRDKitGraphMol.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/GraphMol.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitGraphMol.so.1 -o ../../lib/libRDKitGraphMol.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1 ../../lib/libRDKitGraphMol.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Built target GraphMol make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake --color= make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake --color= Scanning dependencies of target MolTransforms make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build Scanning dependencies of target SubstructMatch make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms && /usr/bin/g++ -DMolTransforms_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLTRANSFORMS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/MolTransforms.cpp [ 23%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructMatch_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/SubstructMatch.cpp [ 23%] Linking CXX shared library ../../../lib/libRDKitMolTransforms.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolTransforms.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitMolTransforms.so.1 -o ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1 ../../../lib/libRDKitMolTransforms.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Built target MolTransforms make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake --color= Scanning dependencies of target SmilesParse make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/SmilesParse.cpp [ 23%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructMatch_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/SubstructUtils.cpp [ 23%] Linking CXX shared library ../../../lib/libRDKitSubstructMatch.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructMatch.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitSubstructMatch.so.1 -o ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/SmilesParseOps.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1 ../../../lib/libRDKitSubstructMatch.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Built target SubstructMatch make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake --color= Scanning dependencies of target Subgraphs make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubgraphs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/Subgraphs.cpp [ 23%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubgraphs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/SubgraphUtils.cpp [ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/SmilesWrite.cpp [ 23%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Subgraphs.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitSubgraphs.so.1 -o ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1 ../../../lib/libRDKitSubgraphs.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Built target Subgraphs make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake --color= Scanning dependencies of target PartialCharges make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges && /usr/bin/g++ -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/GasteigerCharges.cpp [ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/SmartsWrite.cpp [ 23%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges && /usr/bin/g++ -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/GasteigerParams.cpp [ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CXSmilesOps.cpp [ 23%] Linking CXX shared library ../../../lib/libRDKitPartialCharges.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/PartialCharges.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitPartialCharges.so.1 -o ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1 ../../../lib/libRDKitPartialCharges.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Built target PartialCharges make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake --color= Scanning dependencies of target Trajectory make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_TRAJECTORY_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DTrajectory_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Trajectory.dir/Trajectory.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory/Trajectory.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CXSmilesOps.cpp: In function 'std::string RDKit::SmilesWrite::{anonymous}::get_radical_block(const RDKit::ROMol&, const std::vector&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CXSmilesOps.cpp:514:21: warning: loop variable 'pr' creates a copy from type 'const std::pair >' [-Wrange-loop-construct] 514 | for (const auto pr : rads) { | ^~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CXSmilesOps.cpp:514:21: note: use reference type to prevent copying 514 | for (const auto pr : rads) { | ^~ | & [ 23%] Linking CXX shared library ../../../lib/libRDKitTrajectory.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/Trajectory.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitTrajectory.so.1 -o ../../../lib/libRDKitTrajectory.so.1.2019.03.3 CMakeFiles/Trajectory.dir/Trajectory.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1 ../../../lib/libRDKitTrajectory.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Built target Trajectory make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/DependInfo.cmake --color= Scanning dependencies of target rdPartialCharges make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Building CXX object Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdPartialCharges_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp [ 24%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/smarts.tab.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 24%] Linking CXX shared module ../../../../rdkit/Chem/rdPartialCharges.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdPartialCharges.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdPartialCharges.so CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Built target rdPartialCharges make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolTransforms make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Building CXX object Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolTransforms_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 24%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/smiles.tab.cpp [ 24%] Linking CXX shared module ../../../../rdkit/Chem/rdMolTransforms.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolTransforms.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdMolTransforms.so CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 24%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/lex.yysmarts.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Built target rdMolTransforms make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target ShapeHelpers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DShapeHelpers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/ShapeEncoder.cpp [ 24%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/lex.yysmiles.cpp [ 24%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DShapeHelpers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp [ 24%] Linking CXX shared library ../../../lib/libRDKitShapeHelpers.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ShapeHelpers.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitShapeHelpers.so.1 -o ../../../lib/libRDKitShapeHelpers.so.1.2019.03.3 CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitShapeHelpers.so.1.2019.03.3 ../../../lib/libRDKitShapeHelpers.so.1 ../../../lib/libRDKitShapeHelpers.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Built target ShapeHelpers make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target MolCatalog make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog && /usr/bin/g++ -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/MolCatalogEntry.cpp [ 24%] Linking CXX shared library ../../../lib/libRDKitSmilesParse.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SmilesParse.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitSmilesParse.so.1 -o ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/smarts.tab.hpp:97:7: warning: type 'union YYSTYPE' violates the C++ One Definition Rule [-Wodr] 97 | union YYSTYPE | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/smiles.tab.hpp:80:7: note: a different type is defined in another translation unit 80 | union YYSTYPE | ^ smarts.yy:64:22: note: the first difference of corresponding definitions is field 'atom' 64 | (YYSTYPE * yylval_param , yyscan_t yyscanner, int& start_token) | ^ smiles.yy:79:17: note: a field of same name but different type is defined in another translation unit 79 | %parse-param {void *scanner} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryAtom.h:27:29: note: type name 'RDKit::QueryAtom' should match type name 'RDKit::Atom' 27 | class RDKIT_GRAPHMOL_EXPORT QueryAtom : public Atom { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Atom.h:69:29: note: the incompatible type is defined here 69 | class RDKIT_GRAPHMOL_EXPORT Atom : public RDProps { | ^ /scratch/RDKit_git/Code/GraphMol/SmilesParse/smarts.tab.cpp:417:7: warning: type 'union yyalloc' violates the C++ One Definition Rule [-Wodr] /scratch/RDKit_git/Code/GraphMol/SmilesParse/smiles.tab.cpp:414:7: note: a different type is defined in another translation unit /scratch/RDKit_git/Code/GraphMol/SmilesParse/smarts.tab.cpp:420:11: note: the first difference of corresponding definitions is field 'yyvs_alloc' /scratch/RDKit_git/Code/GraphMol/SmilesParse/smiles.tab.cpp:417:11: note: a field of same name but different type is defined in another translation unit /scratch/RDKit_git/Code/GraphMol/SmilesParse/smarts.tab.cpp:417:7: note: type 'union YYSTYPE' itself violates the C++ One Definition Rule [ 24%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog && /usr/bin/g++ -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/MolCatalogParams.cpp [ 25%] Linking CXX shared library ../../../lib/libRDKitMolCatalog.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolCatalog.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitMolCatalog.so.1 -o ../../../lib/libRDKitMolCatalog.so.1.2019.03.3 CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolCatalog.so.1.2019.03.3 ../../../lib/libRDKitMolCatalog.so.1 ../../../lib/libRDKitMolCatalog.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 25%] Built target MolCatalog make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake --color= Scanning dependencies of target SLNParse make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 25%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNParse.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/SLNParse.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/SLNParse.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1 ../../../lib/libRDKitSmilesParse.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 25%] Built target SmilesParse make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake --color= Scanning dependencies of target rdqueries make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 25%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/rdqueries.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdqueries.dir/rdqueries.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdqueries.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdqueries.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 25%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdqueries.dir/Queries.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Queries.cpp [ 25%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/SLNAttribs.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Queries.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryAtom.h:16, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitQueries.h:21, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Queries.cpp:15: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryOps.h: In instantiation of 'bool RDKit::HasPropWithValueQuery::Match(TargetPtr) const [with TargetPtr = const RDKit::Atom*]': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryOps.h:949:16: required from here /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryOps.h:956:16: warning: catching polymorphic type 'class KeyErrorException' by value [-Wcatch-value=] 956 | } catch (KeyErrorException) { | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryOps.h:958:23: warning: catching polymorphic type 'class boost::bad_any_cast' by value [-Wcatch-value=] 958 | } catch (boost::bad_any_cast) { | ^~~~~~~~~~~~ [ 25%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/sln.tab.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/sln.tab.cpp [ 26%] Linking CXX shared module ../../../rdkit/Chem/rdqueries.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdqueries.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/Chem/rdqueries.so CMakeFiles/rdqueries.dir/rdqueries.cpp.o CMakeFiles/rdqueries.dir/Queries.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 26%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/lex.yysln.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 26%] Built target rdqueries make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake --color= Scanning dependencies of target rdtrajectory make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 26%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdtrajectory_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Trajectory.cpp [ 27%] Linking CXX shared library ../../../lib/libRDKitSLNParse.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SLNParse.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitSLNParse.so.1 -o ../../../lib/libRDKitSLNParse.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Trajectory.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 27%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdtrajectory_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdTrajectory.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSLNParse.so.1.2019.03.3 ../../../lib/libRDKitSLNParse.so.1 ../../../lib/libRDKitSLNParse.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 27%] Built target SLNParse make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target rdChemicalFeatures make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 27%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap/rdChemicalFeatures.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdTrajectory.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 27%] Linking CXX shared module ../../../rdkit/Chem/rdtrajectory.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdtrajectory.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/Chem/rdtrajectory.so CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 27%] Built target rdtrajectory make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= Scanning dependencies of target Depictor make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 27%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/RDDepictor.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor && /usr/bin/g++ -DDepictor_EXPORTS -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Depictor.dir/RDDepictor.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/RDDepictor.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap/rdChemicalFeatures.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 27%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/RDDepictor.cpp:12: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.h: In member function 'RDDepict::EmbeddedAtom RDDepict::EmbeddedFrag::GetEmbeddedAtom(unsigned int) const': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.h:314:18: warning: implicitly-declared 'RDDepict::EmbeddedAtom::EmbeddedAtom(const RDDepict::EmbeddedAtom&)' is deprecated [-Wdeprecated-copy] 314 | return posi->second; | ^~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/RDDepictor.cpp: In function 'unsigned int RDDepict::compute2DCoords(RDKit::ROMol&, const INT_POINT2D_MAP*, bool, bool, unsigned int, unsigned int, int, bool, bool)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/RDDepictor.cpp:310:58: warning: unused parameter 'forceRDKit' [-Wunused-parameter] 310 | bool permuteDeg4Nodes, bool forceRDKit) { | ~~~~~^~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 27%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor && /usr/bin/g++ -DDepictor_EXPORTS -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.cpp In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.cpp:17: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.h: In member function 'RDDepict::EmbeddedAtom RDDepict::EmbeddedFrag::GetEmbeddedAtom(unsigned int) const': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.h:314:18: warning: implicitly-declared 'RDDepict::EmbeddedAtom::EmbeddedAtom(const RDDepict::EmbeddedAtom&)' is deprecated [-Wdeprecated-copy] 314 | return posi->second; | ^~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.cpp: In member function 'void RDDepict::EmbeddedFrag::addAtomToAtomWithAng(unsigned int, unsigned int)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.cpp:17: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.cpp: In member function 'void RDDepict::EmbeddedFrag::addAtomToAtomWithNoAng(unsigned int, unsigned int)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.cpp:17: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~ [ 28%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/Chem/rdChemicalFeatures.so CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitChemicalFeatures.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 28%] Built target rdChemicalFeatures make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake --color= Scanning dependencies of target Optimizer make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 28%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer && /usr/bin/g++ -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer/BFGSOpt.cpp [ 28%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/LinearSearch.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer && /usr/bin/g++ -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer/LinearSearch.cpp [ 29%] Linking CXX shared library ../../../lib/libRDKitOptimizer.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/Optimizer.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitOptimizer.so.1 -o ../../../lib/libRDKitOptimizer.so.1.2019.03.3 CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1 ../../../lib/libRDKitOptimizer.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 29%] Built target Optimizer [ 29%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DepictUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor && /usr/bin/g++ -DDepictor_EXPORTS -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Depictor.dir/DepictUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/DepictUtils.cpp make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolSGroupCatch make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 29%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/catch_sgroups.cpp [ 29%] Linking CXX shared library ../../../lib/libRDKitDepictor.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/Depictor.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitDepictor.so.1 -o ../../../lib/libRDKitDepictor.so.1.2019.03.3 CMakeFiles/Depictor.dir/RDDepictor.cpp.o CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o CMakeFiles/Depictor.dir/DepictUtils.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1 ../../../lib/libRDKitDepictor.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 29%] Built target Depictor make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolcpTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 29%] Building CXX object Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/cptest.cpp [ 29%] Linking CXX executable graphmolcpTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolcpTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -o graphmolcpTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 29%] Built target graphmolcpTest make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolqueryTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 29%] Building CXX object Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/querytest.cpp [ 29%] Linking CXX executable graphmolqueryTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolqueryTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -o graphmolqueryTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 29%] Built target graphmolqueryTest make -f Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/DependInfo.cmake --color= Scanning dependencies of target graphmoltestCanon make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 29%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/testCanon.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmoltestCanon.dir/testCanon.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/testCanon.cpp [ 30%] Linking CXX executable graphmoltestCanon cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestCanon.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmoltestCanon.dir/testCanon.cpp.o -o graphmoltestCanon -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 30%] Built target graphmoltestCanon make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake --color= Scanning dependencies of target test-valgrind make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Building CXX object Code/GraphMol/CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test-valgrind.cpp [ 31%] Linking CXX executable graphmolSGroupCatch cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolSGroupCatch.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -o graphmolSGroupCatch -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 31%] Linking CXX executable test-valgrind cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-valgrind.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -o test-valgrind -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target test-valgrind make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolIterTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Building CXX object Code/GraphMol/CMakeFiles/graphmolIterTest.dir/itertest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/itertest.cpp [ 31%] Linking CXX executable graphmolIterTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolIterTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -o graphmolIterTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target graphmolIterTest make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolMemTest1 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/memtest1.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target graphmolSGroupCatch make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target ChemTransforms make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms && /usr/bin/g++ -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms/ChemTransforms.cpp [ 31%] Linking CXX executable graphmolMemTest1 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMemTest1.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -o graphmolMemTest1 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target graphmolMemTest1 make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= Scanning dependencies of target smaTest1 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/smatest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/smaTest1.dir/smatest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/smatest.cpp [ 31%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms && /usr/bin/g++ -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms/MolFragmenter.cpp [ 31%] Linking CXX shared library ../../../lib/libRDKitChemTransforms.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemTransforms.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitChemTransforms.so.1 -o ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 31%] Linking CXX executable smaTest1 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smaTest1.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/smaTest1.dir/smatest.cpp.o -o smaTest1 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1 ../../../lib/libRDKitChemTransforms.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target ChemTransforms make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= Scanning dependencies of target smiTest2 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/test2.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/smiTest2.dir/test2.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/test2.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target smaTest1 make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target FilterCatalog make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/Filters.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/g++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/Filters.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Filters.cpp [ 32%] Linking CXX executable smiTest2 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest2.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/smiTest2.dir/test2.cpp.o -o smiTest2 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 32%] Built target smiTest2 make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake --color= [ 32%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/g++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/FilterCatalog.cpp Scanning dependencies of target Fingerprints make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 32%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Fingerprints.cpp [ 32%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/PatternFingerprints.cpp [ 32%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/MorganFingerprints.cpp [ 32%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/g++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp [ 32%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/AtomPairs.cpp [ 32%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/g++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/FilterMatchers.cpp [ 32%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MACCS.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/MACCS.cpp [ 33%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/g++ -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp [ 34%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp [ 34%] Linking CXX shared library ../../../lib/libRDKitFilterCatalog.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FilterCatalog.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitFilterCatalog.so.1 -o ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 34%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp [ 34%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/MorganGenerator.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1 ../../../lib/libRDKitFilterCatalog.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 34%] Built target FilterCatalog make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/DependInfo.cmake --color= Scanning dependencies of target testSubgraphs2 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 34%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/test2.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testSubgraphs2.dir/test2.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/test2.cpp [ 35%] Linking CXX executable testSubgraphs2 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs2.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testSubgraphs2.dir/test2.cpp.o -o testSubgraphs2 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target testSubgraphs2 make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake --color= Scanning dependencies of target testSubgraphs1 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testSubgraphs1.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/test1.cpp [ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/FingerprintUtil.cpp [ 35%] Linking CXX executable testSubgraphs1 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs1.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testSubgraphs1.dir/test1.cpp.o -o testSubgraphs1 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target testSubgraphs1 make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target FragCatalog make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog && /usr/bin/g++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/FragCatalogUtils.cpp [ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp [ 36%] Linking CXX shared library ../../../lib/libRDKitFingerprints.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/Fingerprints.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitFingerprints.so.1 -o ../../../lib/libRDKitFingerprints.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 37%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog && /usr/bin/g++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/FragCatGenerator.cpp [ 37%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog && /usr/bin/g++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1 ../../../lib/libRDKitFingerprints.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 37%] Built target Fingerprints make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake --color= Scanning dependencies of target testPartialCharges make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 37%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testPartialCharges.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/test1.cpp [ 37%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog && /usr/bin/g++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/FragCatParams.cpp [ 37%] Linking CXX executable testPartialCharges cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPartialCharges.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testPartialCharges.dir/test1.cpp.o -o testPartialCharges -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 37%] Built target testPartialCharges make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target MolChemicalFeatures make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 37%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures && /usr/bin/g++ -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp [ 37%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog && /usr/bin/g++ -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/FragFPGenerator.cpp [ 37%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures && /usr/bin/g++ -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp [ 37%] Linking CXX shared library ../../../lib/libRDKitFragCatalog.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragCatalog.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitFragCatalog.so.1 -o ../../../lib/libRDKitFragCatalog.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 37%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures && /usr/bin/g++ -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFragCatalog.so.1.2019.03.3 ../../../lib/libRDKitFragCatalog.so.1 ../../../lib/libRDKitFragCatalog.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 37%] Built target FragCatalog make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target rdShapeHelpers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 37%] Building CXX object Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdShapeHelpers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp [ 37%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures && /usr/bin/g++ -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ D.353596 + 32].x'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: note: '' declared here 97 | python::extract(box2.attr("__getitem__")(1)); | ^ D.353596 + 32].y'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: note: '' declared here 97 | python::extract(box2.attr("__getitem__")(1)); | ^ D.353596 + 32].z'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: note: '' declared here 97 | python::extract(box2.attr("__getitem__")(1)); | ^ D.353590 + 32].x'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: note: '' declared here 95 | python::extract(box2.attr("__getitem__")(0)); | ^ D.353590 + 32].y'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: note: '' declared here 95 | python::extract(box2.attr("__getitem__")(0)); | ^ D.353590 + 32].z'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: note: '' declared here 95 | python::extract(box2.attr("__getitem__")(0)); | ^ D.353584 + 32].x'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: note: '' declared here 92 | python::extract(box1.attr("__getitem__")(1)); | ^ D.353584 + 32].y'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: note: '' declared here 92 | python::extract(box1.attr("__getitem__")(1)); | ^ D.353584 + 32].z'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: note: '' declared here 92 | python::extract(box1.attr("__getitem__")(1)); | ^ D.353555 + 32].x'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: note: '' declared here 90 | python::extract(box1.attr("__getitem__")(0)); | ^ D.353555 + 32].y'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: note: '' declared here 90 | python::extract(box1.attr("__getitem__")(0)); | ^ D.353555 + 32].z'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: In member function 'RDGeom::Point3D::Point3D(RDGeom::Point3D const&)', inlined from 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: note: '' declared here 90 | python::extract(box1.attr("__getitem__")(0)); | ^ [ 38%] Linking CXX shared module ../../../../rdkit/Chem/rdShapeHelpers.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdShapeHelpers.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdShapeHelpers.so CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitShapeHelpers.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread D.15947 + 32].x'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: note: '' declared here 97 | python::extract(box2.attr("__getitem__")(1)); | ^ D.15947 + 32].y'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: note: '' declared here 97 | python::extract(box2.attr("__getitem__")(1)); | ^ D.15947 + 32].z'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:97:67: note: '' declared here 97 | python::extract(box2.attr("__getitem__")(1)); | ^ D.15943 + 32].x'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: note: '' declared here 95 | python::extract(box2.attr("__getitem__")(0)); | ^ D.15943 + 32].y'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: note: '' declared here 95 | python::extract(box2.attr("__getitem__")(0)); | ^ D.15943 + 32].z'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:95:67: note: '' declared here 95 | python::extract(box2.attr("__getitem__")(0)); | ^ D.15939 + 32].x'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: note: '' declared here 92 | python::extract(box1.attr("__getitem__")(1)); | ^ D.15939 + 32].y'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: note: '' declared here 92 | python::extract(box1.attr("__getitem__")(1)); | ^ D.15939 + 32].z'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:92:67: note: '' declared here 92 | python::extract(box1.attr("__getitem__")(1)); | ^ D.15935 + 32].x'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: note: '' declared here 90 | python::extract(box1.attr("__getitem__")(0)); | ^ D.15935 + 32].y'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: note: '' declared here 90 | python::extract(box1.attr("__getitem__")(0)); | ^ D.15935 + 32].z'In member function '__ct ', inlined from 'getUnionOfTwoBox' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: may be used uninitialized [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp: In function 'getUnionOfTwoBox': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:90:67: note: '' declared here 90 | python::extract(box1.attr("__getitem__")(0)); | ^ [ 38%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitMolChemicalFeatures.so.1 -o ../../../lib/libRDKitMolChemicalFeatures.so.1.2019.03.3 CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 38%] Built target rdShapeHelpers make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= Scanning dependencies of target ReducedGraphs make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_REDUCEDGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DReducedGraphs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/ReducedGraphs.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolChemicalFeatures.so.1.2019.03.3 ../../../lib/libRDKitMolChemicalFeatures.so.1 ../../../lib/libRDKitMolChemicalFeatures.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target MolChemicalFeatures make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= Scanning dependencies of target SubstructLibrary make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/SubstructLibrary.cpp [ 40%] Linking CXX shared library ../../../lib/libRDKitReducedGraphs.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ReducedGraphs.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitReducedGraphs.so.1 -o ../../../lib/libRDKitReducedGraphs.so.1.2019.03.3 CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitReducedGraphs.so.1.2019.03.3 ../../../lib/libRDKitReducedGraphs.so.1 ../../../lib/libRDKitReducedGraphs.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Built target ReducedGraphs make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= Scanning dependencies of target testSLNParse make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testSLNParse.dir/test.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/test.cpp [ 41%] Linking CXX shared library ../../../lib/libRDKitSubstructLibrary.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructLibrary.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitSubstructLibrary.so.1 -o ../../../lib/libRDKitSubstructLibrary.so.1.2019.03.3 CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructLibrary.so.1.2019.03.3 ../../../lib/libRDKitSubstructLibrary.so.1 ../../../lib/libRDKitSubstructLibrary.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Built target SubstructLibrary make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake --color= Scanning dependencies of target rdSLNParse make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Building CXX object Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSLNParse_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp [ 41%] Linking CXX executable testSLNParse cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSLNParse.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testSLNParse.dir/test.cpp.o -o testSLNParse -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitSLNParse.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp:35: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 41%] Linking CXX shared module ../../../../rdkit/Chem/rdSLNParse.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSLNParse.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdSLNParse.so CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitSLNParse.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Built target rdSLNParse make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/DependInfo.cmake --color= Scanning dependencies of target rdchem make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/rdchem.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/rdchem.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdchem.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Built target testSLNParse [ 41%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Table.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Table.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Table.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdchem.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Table.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 41%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Atom.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Atom.cpp [ 42%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Bond.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Bond.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Bond.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Atom.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Bond.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 42%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Mol.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Mol.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Mol.cpp [ 42%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Conformer.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Conformer.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Conformer.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Mol.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/Conformer.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make -f External/INCHI-API/CMakeFiles/RDInchiLib.dir/build.make External/INCHI-API/CMakeFiles/RDInchiLib.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/CMakeFiles/RDInchiLib.dir/DependInfo.cmake --color= Scanning dependencies of target RDInchiLib make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/INCHI-API/CMakeFiles/RDInchiLib.dir/build.make External/INCHI-API/CMakeFiles/RDInchiLib.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 42%] Building CXX object External/INCHI-API/CMakeFiles/RDInchiLib.dir/inchi.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API && /usr/bin/g++ -DRDInchiLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDINCHILIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RDInchiLib.dir/inchi.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/inchi.cpp [ 42%] Linking CXX shared library ../../lib/libRDKitRDInchiLib.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDInchiLib.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitRDInchiLib.so.1 -o ../../lib/libRDKitRDInchiLib.so.1.2019.03.3 CMakeFiles/RDInchiLib.dir/inchi.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: -linchi ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDInchiLib.so.1.2019.03.3 ../../lib/libRDKitRDInchiLib.so.1 ../../lib/libRDKitRDInchiLib.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 42%] Built target RDInchiLib make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= Scanning dependencies of target FileParsers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 42%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/Mol2FileParser.cpp [ 42%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/RingInfo.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/RingInfo.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/RingInfo.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 42%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileParser.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolFileParser.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/MolFileParser.cpp [ 42%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/EditableMol.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/EditableMol.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/EditableMol.cpp:17: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 42%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/MonomerInfo.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/MonomerInfo.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 43%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/MolSGroupParsing.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp:15: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 44%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/MolBundle.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/MolBundle.cpp [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/MolSGroupWriting.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/MolBundle.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/MolSGroupWriting.cpp: In function 'RDKit::SGroupWriting::BuildV2000SAPLines[abi:cxx11](int, RDKit::SubstanceGroup const&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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); | ^~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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:866, from /usr/include/c++/11/cstdio:42, from /usr/include/c++/11/ext/string_conversions.h:43, from /usr/include/c++/11/bits/basic_string.h:6566, from /usr/include/c++/11/string:55, from /usr/include/c++/11/bits/locale_classes.h:40, from /usr/include/c++/11/bits/ios_base.h:41, from /usr/include/c++/11/streambuf:41, from /usr/include/c++/11/bits/streambuf_iterator.h:35, from /usr/include/c++/11/iterator:66, from /usr/include/boost/iterator/iterator_traits.hpp:10, from /usr/include/boost/range/mutable_iterator.hpp:23, from /usr/include/boost/range/iterator.hpp:20, from /usr/include/boost/range/begin.hpp:24, from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, from /usr/include/boost/algorithm/string/join.hpp:15, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: /usr/include/bits/stdio2.h:71:35: note: '__snprintf_chk' output between 5 and 13 bytes into a destination of size 5 71 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 73 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 44%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/StereoGroup.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/StereoGroup.cpp [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/MolFileStereochem.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/StereoGroup.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/MolFileWriter.cpp [ 44%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SubstanceGroup.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SubstanceGroup.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp [ 44%] Linking CXX shared module ../../../rdkit/Chem/rdchem.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdchem.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/SDMolSupplier.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SDWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/SDWriter.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/SmilesWriter.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/TDTMolSupplier.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/TDTWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/TDTWriter.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 45%] Built target rdchem make -f External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build.make External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/DependInfo.cmake --color= Scanning dependencies of target rdinchi make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build.make External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 45%] Building CXX object External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/pyInchi.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_RDINCHILIB_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdinchi_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdinchi.dir/pyInchi.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap/pyInchi.cpp [ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/TplFileParser.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/TplFileParser.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap/pyInchi.cpp:32: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 45%] Linking CXX shared module ../../../rdkit/Chem/rdinchi.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdinchi.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/Chem/rdinchi.so CMakeFiles/rdinchi.dir/pyInchi.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitRDInchiLib.so.1.2019.03.3 -linchi ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 45%] Built target rdinchi make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake --color= Scanning dependencies of target testOptimizer make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 46%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer/testOptimizer.cpp [ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/TplFileWriter.cpp [ 46%] Linking CXX executable testOptimizer cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/testOptimizer.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -o testOptimizer -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 46%] Built target testOptimizer make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= Scanning dependencies of target ForceField make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 46%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/ForceField.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/ForceField.cpp [ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/PDBParser.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/PDBParser.cpp [ 47%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/AngleBend.cpp [ 47%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/BondStretch.cpp [ 47%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/Nonbonded.cpp [ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/PDBWriter.cpp [ 47%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/Inversion.cpp [ 47%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/TorsionAngle.cpp [ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/PDBSupplier.cpp [ 48%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/DistanceConstraint.cpp [ 48%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/AngleConstraint.cpp [ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/ProximityBonds.cpp [ 48%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/TorsionConstraint.cpp [ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/SequenceParsers.cpp [ 48%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/PositionConstraint.cpp [ 48%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Params.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Params.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/Params.cpp [ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/SequenceWriters.cpp [ 48%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/AngleBend.cpp [ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SVGParser.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SVGParser.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/SVGParser.cpp [ 50%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/BondStretch.cpp [ 50%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/StretchBend.cpp [ 50%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/OopBend.cpp [ 50%] Linking CXX shared library ../../../lib/libRDKitFileParsers.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/FileParsers.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitFileParsers.so.1 -o ../../../lib/libRDKitFileParsers.so.1.2019.03.3 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/ProximityBonds.cpp.o CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o CMakeFiles/FileParsers.dir/SVGParser.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 50%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/TorsionAngle.cpp [ 50%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/Nonbonded.cpp [ 50%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/DistanceConstraint.cpp [ 50%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/AngleConstraint.cpp [ 51%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/TorsionConstraint.cpp [ 51%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/PositionConstraint.cpp [ 51%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/g++ -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/Params.cpp [ 51%] Linking CXX shared library ../../lib/libRDKitForceField.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceField.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitForceField.so.1 -o ../../lib/libRDKitForceField.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/ForceField.cpp: In member function 'minimize': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory/Snapshot.h:36:7: warning: 'finalForce' may be used uninitialized in this function [-Wmaybe-uninitialized] 36 | d_energy(energy), | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/ForceField.cpp:198:10: note: 'finalForce' was declared here 198 | double finalForce; | ^ cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1 ../../../lib/libRDKitFileParsers.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 51%] Built target FileParsers make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= Scanning dependencies of target rdFingerprintGenerator make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 52%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFingerprintGenerator_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitForceField.so.1.2019.03.3 ../../lib/libRDKitForceField.so.1 ../../lib/libRDKitForceField.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 52%] Built target ForceField make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target testMolTransforms make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 53%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLTRANSFORMS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMolTransforms.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/test1.cpp [ 53%] Linking CXX executable testMolTransforms cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolTransforms.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMolTransforms.dir/test1.cpp.o -o testMolTransforms -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 53%] Built target testMolTransforms make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target testFeatures make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 54%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/testFeatures.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testFeatures.dir/testFeatures.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp [ 54%] Linking CXX shared module ../../../../rdkit/Chem/rdFingerprintGenerator.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFingerprintGenerator.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdFingerprintGenerator.so CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 54%] Linking CXX executable testFeatures cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFeatures.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testFeatures.dir/testFeatures.cpp.o -o testFeatures -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolChemicalFeatures.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 54%] Built target rdFingerprintGenerator make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolChemicalFeatures make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 54%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 54%] Built target testFeatures make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target testMolCatalog make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 55%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMolCatalog.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/test1.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 55%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp [ 55%] Linking CXX executable testMolCatalog cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolCatalog.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMolCatalog.dir/test1.cpp.o -o testMolCatalog -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolCatalog.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 55%] Built target testMolCatalog make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolCatalog make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 55%] Building CXX object Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolCatalog_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp [ 55%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.h:15, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp:5: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 56%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp [ 56%] Linking CXX shared module ../../../../rdkit/Chem/rdMolCatalog.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolCatalog.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdMolCatalog.so CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitMolCatalog.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] Built target rdMolCatalog make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake --color= Scanning dependencies of target FMCS make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/FMCS.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS && /usr/bin/g++ -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/FMCS.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/FMCS.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/property_tree/json_parser/detail/parser.hpp:7, from /usr/include/boost/property_tree/json_parser/detail/read.hpp:13, from /usr/include/boost/property_tree/json_parser.hpp:16, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/FMCS.cpp:16: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 56%] Linking CXX shared module ../../../../rdkit/Chem/rdMolChemicalFeatures.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitMolChemicalFeatures.so.1.2019.03.3 ../../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/FMCS.cpp: In function 'bool RDKit::checkRingMatch(const RDKit::MCSBondCompareParameters&, const RDKit::ROMol&, unsigned int, const RDKit::ROMol&, unsigned int, void*)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/FMCS.cpp:273:60: warning: unused parameter 'p' [-Wunused-parameter] 273 | static bool checkRingMatch(const MCSBondCompareParameters& p, const ROMol& mol1, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/FMCS.cpp:273:76: warning: unused parameter 'mol1' [-Wunused-parameter] 273 | static bool checkRingMatch(const MCSBondCompareParameters& p, const ROMol& mol1, | ~~~~~~~~~~~~~^~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] Built target rdMolChemicalFeatures make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake --color= Scanning dependencies of target MMPA make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA && /usr/bin/g++ -DMMPA_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MMPA_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MMPA.dir/MMPA.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/MMPA.cpp [ 56%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/Seed.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS && /usr/bin/g++ -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/Seed.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Seed.cpp [ 57%] Linking CXX shared library ../../../lib/libRDKitMMPA.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/MMPA.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitMMPA.so.1 -o ../../../lib/libRDKitMMPA.so.1.2019.03.3 CMakeFiles/MMPA.dir/MMPA.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMMPA.so.1.2019.03.3 ../../../lib/libRDKitMMPA.so.1 ../../../lib/libRDKitMMPA.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 57%] Built target MMPA make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= Scanning dependencies of target testReducedGraphs make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 57%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_REDUCEDGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testReducedGraphs.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/test1.cpp [ 58%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS && /usr/bin/g++ -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/MaximumCommonSubgraph.cpp [ 58%] Linking CXX executable testReducedGraphs cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReducedGraphs.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testReducedGraphs.dir/test1.cpp.o -o testReducedGraphs -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitReducedGraphs.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 58%] Built target testReducedGraphs make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= Scanning dependencies of target rdReducedGraphs make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 58%] Building CXX object Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdReducedGraphs_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 58%] Linking CXX shared module ../../../../rdkit/Chem/rdReducedGraphs.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdReducedGraphs.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdReducedGraphs.so CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitReducedGraphs.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 58%] Built target rdReducedGraphs make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/DependInfo.cmake --color= Scanning dependencies of target substructLibraryTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 58%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/substructLibraryTest.cpp [ 58%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS && /usr/bin/g++ -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/SubstructMatchCustom.cpp [ 58%] Linking CXX executable substructLibraryTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructLibraryTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -o substructLibraryTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitSubstructLibrary.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 58%] Linking CXX shared library ../../../lib/libRDKitFMCS.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCS.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitFMCS.so.1 -o ../../../lib/libRDKitFMCS.so.1.2019.03.3 CMakeFiles/FMCS.dir/FMCS.cpp.o CMakeFiles/FMCS.dir/Seed.cpp.o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 58%] Built target substructLibraryTest make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake --color= Scanning dependencies of target rdSubstructLibrary make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFMCS.so.1.2019.03.3 ../../../lib/libRDKitFMCS.so.1 ../../../lib/libRDKitFMCS.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target FMCS make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake --color= Scanning dependencies of target rdmolfiles make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdmolfiles.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp:32: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 59%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdmolfiles.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp:31: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 59%] Linking CXX shared module ../../../../rdkit/Chem/rdSubstructLibrary.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSubstructLibrary.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdSubstructLibrary.so CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitSubstructLibrary.so.1.2019.03.3 ../../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 59%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target rdSubstructLibrary make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake --color= Scanning dependencies of target Descriptors make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Crippen.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/Crippen.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Crippen.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 60%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/MolDescriptors.cpp [ 60%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SDMolSupplier.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SDMolSupplier.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 60%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolSurf.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MolSurf.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/MolSurf.cpp [ 61%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/TDTMolSupplier.cpp [ 61%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Lipinski.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/Lipinski.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Lipinski.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/TDTMolSupplier.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 61%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SmilesMolSupplier.cpp [ 61%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/ConnectivityDescriptors.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SmilesMolSupplier.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 61%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MQN.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/MQN.cpp [ 61%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SmilesWriter.cpp [ 61%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Property.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/Property.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Property.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SmilesWriter.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 62%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/AUTOCORR2D.cpp [ 62%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SDWriter.cpp [ 62%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Data3Ddescriptors.cpp [ 62%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/MolData3Ddescriptors.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/SDWriter.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 62%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/USRDescriptor.cpp [ 62%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/TDTWriter.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/TDTWriter.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 62%] Linking CXX shared library ../../../lib/libRDKitDescriptors.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/Descriptors.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitDescriptors.so.1 -o ../../../lib/libRDKitDescriptors.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 62%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/PDBWriter.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/PDBWriter.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1 ../../../lib/libRDKitDescriptors.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 62%] Built target Descriptors make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target ForceFieldHelpers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 62%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers && /usr/bin/g++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.cpp [ 63%] Linking CXX shared module ../../../rdkit/Chem/rdmolfiles.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolfiles.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/Chem/rdmolfiles.so CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 63%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers && /usr/bin/g++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF/Builder.cpp [ 64%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers && /usr/bin/g++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 64%] Built target rdmolfiles make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolTestsCatch make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 64%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_tests.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmolTestsCatch.dir/catch_tests.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/catch_tests.cpp [ 64%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers && /usr/bin/g++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp [ 64%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers && /usr/bin/g++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.cpp [ 64%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers && /usr/bin/g++ -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.cpp [ 64%] Linking CXX shared library ../../../lib/libRDKitForceFieldHelpers.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitForceFieldHelpers.so.1 -o ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitForceFieldHelpers.so.1 ../../../lib/libRDKitForceFieldHelpers.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 64%] Built target ForceFieldHelpers make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake --color= Scanning dependencies of target molBundleTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 64%] Building CXX object Code/GraphMol/CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/testMolBundle.cpp [ 65%] Linking CXX executable molBundleTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molBundleTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o -o molBundleTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 65%] Built target molBundleTest make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake --color= Scanning dependencies of target testSGroup make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 65%] Building CXX object Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testSGroup.dir/testSGroup.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/testSGroup.cpp [ 66%] Linking CXX executable graphmolTestsCatch cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTestsCatch.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmolTestsCatch.dir/catch_tests.cpp.o -o graphmolTestsCatch -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 66%] Linking CXX executable testSGroup cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSGroup.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testSGroup.dir/testSGroup.cpp.o -o testSGroup -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Built target testSGroup make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake --color= Scanning dependencies of target graphmoltestPicklerGlobalSetting make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/testPicklerGlobalSettings.cpp [ 66%] Linking CXX executable graphmoltestPicklerGlobalSetting cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPicklerGlobalSetting.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -o graphmoltestPicklerGlobalSetting -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Built target graphmoltestPicklerGlobalSetting make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake --color= Scanning dependencies of target graphmoltestChirality make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/testChirality.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Built target graphmolTestsCatch make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolTest1 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmolTest1.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitBase.h:21, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:12: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp: In function 'void testAtomListLineRoundTrip()': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:1218:72: warning: 'this' pointer null [-Wnonnull] 1218 | TEST_ASSERT(dynamic_cast(m->getAtomWithIdx(3))->Match(cl)); | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/Invariant.h:152:9: note: in definition of macro 'TEST_ASSERT' 152 | if (!(expr)) { \ | ^~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitQueries.h:21, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:14: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryAtom.h:73:8: note: in a call to non-static member function 'virtual bool RDKit::QueryAtom::Match(const RDKit::Atom*) const' 73 | bool Match(Atom const *what) const; | ^~~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitBase.h:21, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:12: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:1219:71: warning: 'this' pointer null [-Wnonnull] 1219 | TEST_ASSERT(dynamic_cast(m->getAtomWithIdx(3))->Match(o)); | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/Invariant.h:152:9: note: in definition of macro 'TEST_ASSERT' 152 | if (!(expr)) { \ | ^~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitQueries.h:21, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:14: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryAtom.h:73:8: note: in a call to non-static member function 'virtual bool RDKit::QueryAtom::Match(const RDKit::Atom*) const' 73 | bool Match(Atom const *what) const; | ^~~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitBase.h:21, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:12: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:1220:73: warning: 'this' pointer null [-Wnonnull] 1220 | TEST_ASSERT(dynamic_cast(m2->getAtomWithIdx(3))->Match(cl)); | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/Invariant.h:152:9: note: in definition of macro 'TEST_ASSERT' 152 | if (!(expr)) { \ | ^~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitQueries.h:21, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:14: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryAtom.h:73:8: note: in a call to non-static member function 'virtual bool RDKit::QueryAtom::Match(const RDKit::Atom*) const' 73 | bool Match(Atom const *what) const; | ^~~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitBase.h:21, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:12: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:1221:72: warning: 'this' pointer null [-Wnonnull] 1221 | TEST_ASSERT(dynamic_cast(m2->getAtomWithIdx(3))->Match(o)); | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/Invariant.h:152:9: note: in definition of macro 'TEST_ASSERT' 152 | if (!(expr)) { \ | ^~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitQueries.h:21, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/test1.cpp:14: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/QueryAtom.h:73:8: note: in a call to non-static member function 'virtual bool RDKit::QueryAtom::Match(const RDKit::Atom*) const' 73 | bool Match(Atom const *what) const; | ^~~~~ [ 66%] Linking CXX executable graphmoltestChirality cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestChirality.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -o graphmoltestChirality -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 66%] Linking CXX executable graphmolTest1 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTest1.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmolTest1.dir/test1.cpp.o -o graphmolTest1 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../lib/libRDKitForceField.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Built target graphmolTest1 make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= Scanning dependencies of target resMolSupplierTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Building CXX object Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/resMolSupplierTest.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Built target graphmoltestChirality make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake --color= Scanning dependencies of target graphmolMolOpsTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 67%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/molopstest.cpp [ 67%] Linking CXX executable resMolSupplierTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/resMolSupplierTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -o resMolSupplierTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 67%] Built target resMolSupplierTest make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake --color= Scanning dependencies of target hanoiTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/CMakeFiles/hanoiTest.dir/hanoitest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/hanoitest.cpp [ 68%] Linking CXX executable hanoiTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/hanoiTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -o hanoiTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target hanoiTest make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake --color= Scanning dependencies of target graphmoltestPickler make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/testPickler.cpp [ 68%] Linking CXX executable graphmoltestPickler cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPickler.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -o graphmoltestPickler -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 68%] Linking CXX executable graphmolMolOpsTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMolOpsTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -o graphmolMolOpsTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target graphmoltestPickler make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake --color= Scanning dependencies of target testDepictor make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor && /usr/bin/g++ -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testDepictor.dir/testDepictor.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/testDepictor.cpp [ 68%] Linking CXX executable testDepictor cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDepictor.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testDepictor.dir/testDepictor.cpp.o -o testDepictor -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target testDepictor make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= Scanning dependencies of target rdDepictor make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDepictor_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp:18: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.h: In member function 'RDDepict::EmbeddedAtom RDDepict::EmbeddedFrag::GetEmbeddedAtom(unsigned int) const': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/EmbeddedFrag.h:314:18: warning: implicitly-declared 'RDDepict::EmbeddedAtom::EmbeddedAtom(const RDDepict::EmbeddedAtom&)' is deprecated [-Wdeprecated-copy] 314 | return posi->second; | ^~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp: In function 'void RDDepict::setPreferCoordGen(bool)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp:131:29: warning: unused parameter 'value' [-Wunused-parameter] 131 | void setPreferCoordGen(bool value) { | ~~~~~^~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target graphmolMolOpsTest make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= Scanning dependencies of target smiTest1 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/test.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/smiTest1.dir/test.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/test.cpp [ 68%] Linking CXX shared module ../../../../rdkit/Chem/rdDepictor.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDepictor.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdDepictor.so CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target rdDepictor make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= Scanning dependencies of target smiTestCatch make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/catch_tests.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/catch_tests.cpp: In function 'void ____C_A_T_C_H____T_E_S_T____13()': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/catch_tests.cpp:139:21: warning: loop variable 'sma' creates a copy from type 'const std::__cxx11::basic_string' [-Wrange-loop-construct] 139 | for (const auto sma : smarts) { | ^~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/catch_tests.cpp:139:21: note: use reference type to prevent copying 139 | for (const auto sma : smarts) { | ^~~ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/catch_tests.cpp:150:21: warning: loop variable 'sma' creates a copy from type 'const std::__cxx11::basic_string' [-Wrange-loop-construct] 150 | for (const auto sma : smarts) { | ^~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/catch_tests.cpp:150:21: note: use reference type to prevent copying 150 | for (const auto sma : smarts) { | ^~~ | & [ 68%] Linking CXX executable smiTest1 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest1.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/smiTest1.dir/test.cpp.o -o smiTest1 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target smiTest1 make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= Scanning dependencies of target cxsmilesTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/cxsmiles_test.cpp [ 68%] Linking CXX executable smiTestCatch cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTestCatch.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -o smiTestCatch -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 68%] Linking CXX executable cxsmilesTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/cxsmilesTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -o cxsmilesTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target cxsmilesTest make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake --color= Scanning dependencies of target testMolWriter make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testMolWriter.cpp [ 68%] Linking CXX executable testMolWriter cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolWriter.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -o testMolWriter -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target smiTestCatch make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake --color= Scanning dependencies of target fileParsersTest1 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/fileParsersTest1.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/test1.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target testMolWriter make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake --color= Scanning dependencies of target testMolSupplier make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testMolSupplier.cpp [ 68%] Linking CXX executable testMolSupplier cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolSupplier.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -o testMolSupplier -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitRDStreams.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target testMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= Scanning dependencies of target testExtendedStereoParsing make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testExtendedStereoParsing.cpp [ 68%] Linking CXX executable testExtendedStereoParsing cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testExtendedStereoParsing.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -o testExtendedStereoParsing -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target testExtendedStereoParsing make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake --color= Scanning dependencies of target testTplParser make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testTplParser.dir/testTpls.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testTpls.cpp [ 68%] Linking CXX executable fileParsersTest1 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersTest1.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/fileParsersTest1.dir/test1.cpp.o -o fileParsersTest1 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testTpls.cpp: In function 'void test1()': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitBase.h:25, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testTpls.cpp:13: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:60:3: note: because 'RDKit::Conformer' has user-provided 'RDKit::Conformer::Conformer(const RDKit::Conformer&)' 60 | Conformer(const Conformer &other); | ^~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitBase.h:25, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testTpls.cpp:13: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:60:3: note: because 'RDKit::Conformer' has user-provided 'RDKit::Conformer::Conformer(const RDKit::Conformer&)' 60 | Conformer(const Conformer &other); | ^~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RDKitBase.h:25, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testTpls.cpp:13: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:60:3: note: because 'RDKit::Conformer' has user-provided 'RDKit::Conformer::Conformer(const RDKit::Conformer&)' 60 | Conformer(const Conformer &other); | ^~~~~~~~~ [ 68%] Linking CXX executable testTplParser cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTplParser.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testTplParser.dir/testTpls.cpp.o -o testTplParser -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target testTplParser make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake --color= Scanning dependencies of target testMol2ToMol make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testMol2ToMol.cpp [ 68%] Linking CXX executable testMol2ToMol cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMol2ToMol.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -o testMol2ToMol -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target testMol2ToMol make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake --color= Scanning dependencies of target testSequence make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/testSequence.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testSequence.dir/testSequence.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testSequence.cpp [ 68%] Linking CXX executable testSequence cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSequence.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testSequence.dir/testSequence.cpp.o -o testSequence -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target testSequence make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake --color= Scanning dependencies of target fileParsersCatchTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/catch_tests.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/fileParsersCatchTest.dir/catch_tests.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/catch_tests.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Built target fileParsersTest1 make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake --color= Scanning dependencies of target testPropertyLists make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/g++ -DBOOST_IOSTREAMS_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/testPropertyLists.cpp [ 69%] Linking CXX executable fileParsersCatchTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersCatchTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/fileParsersCatchTest.dir/catch_tests.cpp.o -o fileParsersCatchTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 69%] Linking CXX executable testPropertyLists cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPropertyLists.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -o testPropertyLists -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Built target fileParsersCatchTest make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake --color= Scanning dependencies of target testSubstructMatch make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testSubstructMatch.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/test1.cpp [ 69%] Linking CXX executable testSubstructMatch cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubstructMatch.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testSubstructMatch.dir/test1.cpp.o -o testSubstructMatch -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Built target testPropertyLists make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake --color= Scanning dependencies of target substructTestCatch make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/catch_tests.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Built target testSubstructMatch make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= Scanning dependencies of target ChemReactions make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 70%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Reaction.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Reaction.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Reaction.cpp [ 70%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MDLParser.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/MDLParser.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/MDLParser.cpp [ 70%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/DaylightParser.cpp [ 70%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionPickler.cpp In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolPickler.h:19, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionPickler.cpp:13: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/StreamOps.h: In function 'bool RDKit::isSerializable(const RDKit::Dict::Pair&, const CustomPropHandlerVec&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/StreamOps.h:353:7: warning: this statement may fall through [-Wimplicit-fallthrough=] 353 | } | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/StreamOps.h:354:5: note: here 354 | default: | ^~~~~~~ [ 70%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionWriter.cpp [ 70%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionDepict.cpp [ 71%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp: In function 'RDKit::SparseIntVect* RDKit::DifferenceFingerprintChemReaction(const RDKit::ChemicalReaction&, const RDKit::ReactionFingerprintParams&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Fingerprints.h:16, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp:37: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Fingerprints.h:16, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp:37: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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) { | ^~~~~~~~~~~~~ [ 71%] Linking CXX executable substructTestCatch cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructTestCatch.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -o substructTestCatch -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 71%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionUtils.cpp [ 71%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/MoleculeParser.cpp [ 71%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/ReactionRunner.cpp [ 71%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/PreprocessRxn.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 71%] Built target substructTestCatch make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target testChemTransforms make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 72%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms && /usr/bin/g++ -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms/testChemTransforms.cpp [ 72%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/SanitizeRxn.cpp [ 72%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp [ 72%] Linking CXX executable testChemTransforms cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemTransforms.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -o testChemTransforms -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 73%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 73%] Built target testChemTransforms make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake --color= Scanning dependencies of target filterCatalogTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 73%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/filtercatalogtest.cpp [ 73%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.cpp [ 73%] Linking CXX executable filterCatalogTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/filterCatalogTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -o filterCatalogTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 73%] Built target filterCatalogTest make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake --color= Scanning dependencies of target rdfiltercatalog make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 73%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.cpp:32: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 73%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp [ 73%] Linking CXX shared library ../../../lib/libRDKitChemReactions.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemReactions.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitChemReactions.so.1 -o ../../../lib/libRDKitChemReactions.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp:31: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1 ../../../lib/libRDKitChemReactions.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 73%] Built target ChemReactions make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake --color= Scanning dependencies of target testFragCatalog make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 74%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testFragCatalog.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/test1.cpp [ 74%] Linking CXX executable testFragCatalog cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFragCatalog.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testFragCatalog.dir/test1.cpp.o -o testFragCatalog -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFragCatalog.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 74%] Built target testFragCatalog make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake --color= Scanning dependencies of target rdfragcatalog make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 74%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/rdfragcatalog.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/rdfragcatalog.h:15, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/rdfragcatalog.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 74%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp [ 75%] Linking CXX shared module ../../../../rdkit/Chem/rdfiltercatalog.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfiltercatalog.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdfiltercatalog.so CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 75%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 75%] Built target rdfiltercatalog make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= Scanning dependencies of target testAUTOCORR2D make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 75%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/testAUTOCORR2D.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 75%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.cpp [ 75%] Linking CXX executable testAUTOCORR2D cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR2D.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -o testAUTOCORR2D -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 75%] Built target testAUTOCORR2D make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake --color= Scanning dependencies of target testDescriptors make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 75%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/test.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/g++ -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testDescriptors.dir/test.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/test.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 75%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 76%] Linking CXX shared module ../../../../rdkit/Chem/rdfragcatalog.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfragcatalog.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitFragCatalog.so.1.2019.03.3 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 76%] Built target rdfragcatalog make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolDescriptors make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 76%] Building CXX object Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolDescriptors_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp [ 76%] Linking CXX executable testDescriptors cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDescriptors.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testDescriptors.dir/test.cpp.o -o testDescriptors -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 76%] Built target testDescriptors make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake --color= Scanning dependencies of target fpTestCatch make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/catch_tests.cpp D.382551 + 32].x'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/GraphMol.h:19, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: In member function 'RDGeom::Point3D::operator=(RDGeom::Point3D const&)', inlined from '(anonymous namespace)::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:85:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 85 | x = other.x; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function '(anonymous namespace)::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: note: '' declared here 539 | *pt = python::extract(coords[i]); | ^ D.382551 + 32].y'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/GraphMol.h:19, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: In member function 'RDGeom::Point3D::operator=(RDGeom::Point3D const&)', inlined from '(anonymous namespace)::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:86:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 86 | y = other.y; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function '(anonymous namespace)::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: note: '' declared here 539 | *pt = python::extract(coords[i]); | ^ D.382551 + 32].z'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/GraphMol.h:19, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: In member function 'RDGeom::Point3D::operator=(RDGeom::Point3D const&)', inlined from '(anonymous namespace)::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:87:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 87 | z = other.z; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function '(anonymous namespace)::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: note: '' declared here 539 | *pt = python::extract(coords[i]); | ^ D.381084 + 32].x'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/GraphMol.h:19, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: In member function 'RDGeom::Point3D::operator=(RDGeom::Point3D const&)', inlined from '(anonymous namespace)::GetUSRDistributions(boost::python::api::object, boost::python::api::object)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:85:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 85 | x = other.x; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function '(anonymous namespace)::GetUSRDistributions(boost::python::api::object, boost::python::api::object)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: note: '' declared here 506 | *pt = python::extract(coords[i]); | ^ D.381084 + 32].y'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/GraphMol.h:19, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: In member function 'RDGeom::Point3D::operator=(RDGeom::Point3D const&)', inlined from '(anonymous namespace)::GetUSRDistributions(boost::python::api::object, boost::python::api::object)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:86:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 86 | y = other.y; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function '(anonymous namespace)::GetUSRDistributions(boost::python::api::object, boost::python::api::object)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: note: '' declared here 506 | *pt = python::extract(coords[i]); | ^ D.381084 + 32].z'In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Conformer.h:14, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ROMol.h:36, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/GraphMol.h:19, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: In member function 'RDGeom::Point3D::operator=(RDGeom::Point3D const&)', inlined from '(anonymous namespace)::GetUSRDistributions(boost::python::api::object, boost::python::api::object)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:87:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 87 | z = other.z; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function '(anonymous namespace)::GetUSRDistributions(boost::python::api::object, boost::python::api::object)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: note: '' declared here 506 | *pt = python::extract(coords[i]); | ^ [ 77%] Linking CXX shared module ../../../../rdkit/Chem/rdMolDescriptors.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDescriptors.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdMolDescriptors.so CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread D.18352 + 32].x'In member function 'operator=', inlined from 'GetUSRDistributions' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:85:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 85 | x = other.x; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function 'GetUSRDistributions': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: note: '' declared here 506 | *pt = python::extract(coords[i]); | ^ D.18352 + 32].y'In member function 'operator=', inlined from 'GetUSRDistributions' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:86:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 86 | y = other.y; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function 'GetUSRDistributions': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: note: '' declared here 506 | *pt = python::extract(coords[i]); | ^ D.18352 + 32].z'In member function 'operator=', inlined from 'GetUSRDistributions' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:87:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 87 | z = other.z; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function 'GetUSRDistributions': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:506:53: note: '' declared here 506 | *pt = python::extract(coords[i]); | ^ D.20585 + 32].x'In member function 'operator=', inlined from 'GetUSRDistributionsFromPoints' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:85:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 85 | x = other.x; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function 'GetUSRDistributionsFromPoints': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: note: '' declared here 539 | *pt = python::extract(coords[i]); | ^ D.20585 + 32].y'In member function 'operator=', inlined from 'GetUSRDistributionsFromPoints' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:86:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 86 | y = other.y; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function 'GetUSRDistributionsFromPoints': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: note: '' declared here 539 | *pt = python::extract(coords[i]); | ^ D.20585 + 32].z'In member function 'operator=', inlined from 'GetUSRDistributionsFromPoints' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:87:15: warning: may be used uninitialized [-Wmaybe-uninitialized] 87 | z = other.z; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function 'GetUSRDistributionsFromPoints': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:539:53: note: '' declared here 539 | *pt = python::extract(coords[i]); | ^ [ 77%] Linking CXX executable fpTestCatch cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/fpTestCatch.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -o fpTestCatch -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Built target rdMolDescriptors make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= Scanning dependencies of target testFingerprintGenerators make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp [ 77%] Linking CXX executable testFingerprintGenerators cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprintGenerators.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -o testFingerprintGenerators -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Built target fpTestCatch make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake --color= Scanning dependencies of target testFingerprints make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testFingerprints.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/test1.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Built target testFingerprintGenerators make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target rdForceFieldHelpers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Building CXX object Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceFieldHelpers_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 77%] Linking CXX shared module ../../../../rdkit/Chem/rdForceFieldHelpers.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdForceFieldHelpers.so CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Built target rdForceFieldHelpers make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= Scanning dependencies of target MolDraw2D make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/g++ -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/MolDraw2D.cpp [ 77%] Linking CXX executable testFingerprints cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprints.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testFingerprints.dir/test1.cpp.o -o testFingerprints -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 78%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/g++ -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/MolDraw2DSVG.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Built target testFingerprints make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake --color= Scanning dependencies of target testFMCS make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/testFMCS_Unit.cpp [ 78%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/g++ -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp [ 78%] Linking CXX executable testFMCS cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFMCS.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -o testFMCS -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFMCS.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 78%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/g++ -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Built target testFMCS make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= Scanning dependencies of target rdFMCS make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Building CXX object Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFMCS_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/property_tree/json_parser/detail/parser.hpp:7, from /usr/include/boost/property_tree/json_parser/detail/read.hpp:13, from /usr/include/boost/property_tree/json_parser.hpp:16, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp:22: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 78%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/g++ -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/MolDraw2DCairo.cpp [ 78%] Linking CXX shared module ../../../../rdkit/Chem/rdFMCS.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFMCS.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdFMCS.so CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitFMCS.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 78%] Linking CXX shared library ../../../lib/libRDKitMolDraw2D.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolDraw2D.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitMolDraw2D.so.1 -o ../../../lib/libRDKitMolDraw2D.so.1.2019.03.3 CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_serialization -lcairo make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Built target rdFMCS make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Test /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Test /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= Scanning dependencies of target FMCStest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Building CXX object Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Test && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/FMCStest.dir/testFMCS.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Test/testFMCS.cpp [ 78%] Linking CXX executable FMCStest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Test && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCStest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/FMCStest.dir/testFMCS.cpp.o -o FMCStest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../../lib/libRDKitFMCS.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolDraw2D.so.1.2019.03.3 ../../../lib/libRDKitMolDraw2D.so.1 ../../../lib/libRDKitMolDraw2D.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Built target MolDraw2D make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake --color= Scanning dependencies of target MolHash make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/MolHash.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash && /usr/bin/g++ -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolHash.dir/MolHash.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/MolHash.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Built target FMCStest make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= Scanning dependencies of target testMMPA make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MMPA_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/MMPA_UnitTest.cpp [ 79%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/HashToString.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash && /usr/bin/g++ -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolHash.dir/HashToString.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/HashToString.cpp [ 79%] Linking CXX executable testMMPA cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMPA.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -o testMMPA -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMMPA.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 79%] Built target testMMPA make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= Scanning dependencies of target rdMMPA make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 79%] Building CXX object Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMMPA_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp [ 79%] Linking CXX shared library ../../../lib/libRDKitMolHash.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolHash.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitMolHash.so.1 -o ../../../lib/libRDKitMolHash.so.1.2019.03.3 CMakeFiles/MolHash.dir/MolHash.cpp.o CMakeFiles/MolHash.dir/HashToString.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolHash.so.1.2019.03.3 ../../../lib/libRDKitMolHash.so.1 ../../../lib/libRDKitMolHash.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 79%] Built target MolHash make -f Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/DependInfo.cmake --color= Scanning dependencies of target StructChecker make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 79%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/StructChecker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/StructChecker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/StructChecker.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 79%] Linking CXX shared module ../../../../rdkit/Chem/rdMMPA.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMMPA.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdMMPA.so CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitMMPA.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 80%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/StructCheckerOptions.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/StructCheckerOptions.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/StructCheckerOptions.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 80%] Built target rdMMPA make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake --color= Scanning dependencies of target trajectoryTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 80%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_TRAJECTORY_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory/trajectoryTest.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/property_tree/json_parser/detail/parser.hpp:7, from /usr/include/boost/property_tree/json_parser/detail/read.hpp:13, from /usr/include/boost/property_tree/json_parser.hpp:16, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/StructCheckerOptions.cpp:16: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 81%] Linking CXX executable trajectoryTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/trajectoryTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -o trajectoryTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 81%] Built target trajectoryTest make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake --color= Scanning dependencies of target RGroupDecomposition make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 81%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/RGroupDecomp.cpp [ 81%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/StructureFlags.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/StructureFlags.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/StructureFlags.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/RGroupDecomp.cpp: In member function 'void RDKit::RGroupDecompData::relabelCore(RDKit::RWMol&, std::map&, const std::set&, const std::set&, std::map >)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/RGroupDecomp.cpp:675:41: warning: unused parameter 'userLabels' [-Wunused-parameter] 675 | const std::set &userLabels, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ [ 81%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/Utilites.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/Utilites.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Utilites.cpp [ 81%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/Pattern.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/Pattern.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Pattern.cpp [ 81%] Linking CXX shared library ../../../lib/libRDKitRGroupDecomposition.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/RGroupDecomposition.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitRGroupDecomposition.so.1 -o ../../../lib/libRDKitRGroupDecomposition.so.1.2019.03.3 CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitFMCS.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [ 81%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/Stereo.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/Stereo.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Stereo.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitRGroupDecomposition.so.1.2019.03.3 ../../../lib/libRDKitRGroupDecomposition.so.1 ../../../lib/libRDKitRGroupDecomposition.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 81%] Built target RGroupDecomposition make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= Scanning dependencies of target rdmolops make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/rdmolops.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdmolops.cpp [ 81%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/AtomSymbolMatch.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/AtomSymbolMatch.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/AtomSymbolMatch.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/rdmolops.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/MolOps.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/MolOps.cpp [ 81%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/StripSmallFragments.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/StripSmallFragments.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/StripSmallFragments.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/MolOps.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 82%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/ReCharge.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/ReCharge.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/ReCharge.cpp [ 82%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/Tautomer.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/StructChecker.dir/Tautomer.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Tautomer.cpp [ 82%] Linking CXX shared library ../../../lib/libRDKitStructChecker.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/cmake -E cmake_link_script CMakeFiles/StructChecker.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitStructChecker.so.1 -o ../../../lib/libRDKitStructChecker.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitStructChecker.so.1.2019.03.3 ../../../lib/libRDKitStructChecker.so.1 ../../../lib/libRDKitStructChecker.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 82%] Built target StructChecker make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake --color= Scanning dependencies of target MolStandardize make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 82%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/MolStandardize.cpp [ 82%] Linking CXX shared module ../../../rdkit/Chem/rdmolops.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolops.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/Chem/rdmolops.so CMakeFiles/rdmolops.dir/rdmolops.cpp.o CMakeFiles/rdmolops.dir/MolOps.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitMolDraw2D.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 -lcairo ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_serialization [ 82%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Metal.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Metal.cpp [ 82%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Normalize.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Normalize.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 82%] Built target rdmolops make -f Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build.make Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/DependInfo.cmake --color= Scanning dependencies of target rdkit make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build.make Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 82%] Building CXX object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/adapter.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/g++ -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdkit.dir/adapter.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp [ 82%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Validate.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Validate.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/property_tree/json_parser/detail/parser.hpp:7, from /usr/include/boost/property_tree/json_parser/detail/read.hpp:13, from /usr/include/boost/property_tree/json_parser.hpp:16, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:60: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp: In function 'double calcSparseStringDiceSml(const char*, unsigned int, const char*, unsigned int)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1007:71: warning: unused parameter 'sza' [-Wunused-parameter] 1007 | extern "C" double calcSparseStringDiceSml(const char *a, unsigned int sza, | ~~~~~~~~~~~~~^~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1008:71: warning: unused parameter 'szb' [-Wunused-parameter] 1008 | const char *b, unsigned int szb) { | ~~~~~~~~~~~~~^~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp: In function 'bool calcSparseStringAllValsGT(const char*, unsigned int, int)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1120:71: warning: unused parameter 'sza' [-Wunused-parameter] 1120 | extern "C" bool calcSparseStringAllValsGT(const char *a, unsigned int sza, | ~~~~~~~~~~~~~^~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp: In function 'bool calcSparseStringAllValsLT(const char*, unsigned int, int)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1158:71: warning: unused parameter 'sza' [-Wunused-parameter] 1158 | extern "C" bool calcSparseStringAllValsLT(const char *a, unsigned int sza, | ~~~~~~~~~~~~~^~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp: In function 'void* makeAvalonBFP(CROMol, bool, unsigned int)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1459:38: warning: unused parameter 'data' [-Wunused-parameter] 1459 | extern "C" CBfp makeAvalonBFP(CROMol data, bool isQuery, | ~~~~~~~^~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1459:49: warning: unused parameter 'isQuery' [-Wunused-parameter] 1459 | extern "C" CBfp makeAvalonBFP(CROMol data, bool isQuery, | ~~~~~^~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1460:44: warning: unused parameter 'bitFlags' [-Wunused-parameter] 1460 | unsigned int bitFlags) { | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp: In function 'void* makeReactionDifferenceSFP(CChemicalReaction, int, int)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1899:21: warning: unused variable 'fp' [-Wunused-variable] 1899 | FingerprintType fp = static_cast(fpType); | ^~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp: In function 'void* makeReactionBFP(CChemicalReaction, int, int)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1921:21: warning: unused variable 'fp' [-Wunused-variable] 1921 | FingerprintType fp = static_cast(fpType); | ^~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp: In function 'char* findMCSsmiles(char*, char*)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/adapter.cpp:1966:12: warning: unused variable 'nmols' [-Wunused-variable] 1966 | int len, nmols = 0; | ^~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Validate.cpp: In member function 'virtual std::vector RDKit::MolStandardize::MolVSValidation::validate(const RDKit::ROMol&, bool) const': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Validate.cpp:207:19: warning: loop variable 'method' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 207 | for (const auto method : this->d_validations) { | ^~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Validate.cpp:207:19: note: use reference type to prevent copying 207 | for (const auto method : this->d_validations) { | ^~~~~~ | & [ 82%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Charge.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Charge.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Charge.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Charge.cpp: In member function 'RDKit::ROMol* RDKit::MolStandardize::Uncharger::uncharge(const RDKit::ROMol&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Charge.cpp:314:23: warning: loop variable 'pr' creates a copy from type 'const std::pair' [-Wrange-loop-construct] 314 | for (const auto pr : a_atoms) nonAcids.reset(pr.second); | ^~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Charge.cpp:314:23: note: use reference type to prevent copying 314 | for (const auto pr : a_atoms) nonAcids.reset(pr.second); | ^~ | & [ 82%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_op.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/bfp_op.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/bfp_op.c [ 82%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/cache.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/cache.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/cache.c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/cache.c: In function 'createCache': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/cache.c:312:17: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] 312 | methodsOrig = ctx->methods; | ^ [ 82%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/guc.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/guc.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/guc.c [ 83%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/low_gist.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/low_gist.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/low_gist.c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/low_gist.c: In function 'gslfp_consistent': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/low_gist.c:410:30: warning: implicit declaration of function 'searchSfpCache' [-Wimplicit-function-declaration] 410 | fcinfo->flinfo->fn_extra = searchSfpCache( | ^~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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( | ^ [ 83%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/mol_op.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/mol_op.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:34: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c: In function 'fmcs_mol2s_transition': /usr/include/pgsql/server/fmgr.h:268:34: warning: initialization of 'CROMol' {aka 'void *'} from 'Datum' {aka 'long unsigned int'} makes pointer from integer without a cast [-Wint-conversion] 268 | #define PG_GETARG_DATUM(n) (fcinfo->args[n].value) | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:393:18: note: in expansion of macro 'PG_GETARG_DATUM' 393 | CROMol mol = PG_GETARG_DATUM(1); | ^~~~~~~~~~~~~~~ /usr/include/pgsql/server/fmgr.h:268:34: warning: initialization of 'CROMol' {aka 'void *'} from 'Datum' {aka 'long unsigned int'} makes pointer from integer without a cast [-Wint-conversion] 268 | #define PG_GETARG_DATUM(n) (fcinfo->args[n].value) | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:421:18: note: in expansion of macro 'PG_GETARG_DATUM' 421 | CROMol mol = PG_GETARG_DATUM(1); | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c: In function 'fmcs_mol_transition': /usr/include/pgsql/server/fmgr.h:268:34: warning: initialization of 'CROMol' {aka 'void *'} from 'Datum' {aka 'long unsigned int'} makes pointer from integer without a cast [-Wint-conversion] 268 | #define PG_GETARG_DATUM(n) (fcinfo->args[n].value) | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:489:18: note: in expansion of macro 'PG_GETARG_DATUM' 489 | CROMol mol = PG_GETARG_DATUM(1); | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:33: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:496:21: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 496 | PG_RETURN_INT32((int32)lst); | ^ /usr/include/pgsql/server/postgres.h:479:36: note: in definition of macro 'Int32GetDatum' 479 | #define Int32GetDatum(X) ((Datum) (X)) | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:496:5: note: in expansion of macro 'PG_RETURN_INT32' 496 | PG_RETURN_INT32((int32)lst); | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:34: /usr/include/pgsql/server/fmgr.h:268:34: warning: initialization of 'CROMol' {aka 'void *'} from 'Datum' {aka 'long unsigned int'} makes pointer from integer without a cast [-Wint-conversion] 268 | #define PG_GETARG_DATUM(n) (fcinfo->args[n].value) | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:500:18: note: in expansion of macro 'PG_GETARG_DATUM' 500 | CROMol mol = PG_GETARG_DATUM(1); | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c: In function 'fmcs_smiles_transition': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:373:1: warning: control reaches end of non-void function [-Wreturn-type] 373 | } | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c: In function 'fmcs_mol_transition': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/mol_op.c:508:1: warning: control reaches end of non-void function [-Wreturn-type] 508 | } | ^ [ 83%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rdkit_gist.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/rdkit_gist.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/rdkit_gist.c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/rdkit_gist.c: In function 'soergeldist': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/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)); | ^~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/rdkit_gist.c:42:1: note: include '' or provide a declaration of 'floor' 41 | #include "bitstring.h" +++ |+#include 42 | /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/rdkit_gist.c:275:16: warning: incompatible implicit declaration of built-in function 'floor' [-Wbuiltin-declaration-mismatch] 275 | return (int) floor(10000*soergeldistsign(a, b)); | ^~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/rdkit_gist.c:275:16: note: include '' or provide a declaration of 'floor' /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/rdkit_gist.c:262:10: warning: unused variable 'd' [-Wunused-variable] 262 | double d; | ^ [ 83%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_gist.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/bfp_gist.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/bfp_gist.c [ 83%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_gin.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/bfp_gin.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/bfp_gin.c [ 83%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bitstring.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/bitstring.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/bitstring.c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/bitstring.c: In function 'bitstringUnion': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/bitstring.c:72:7: warning: unused variable 'i' [-Wunused-variable] 72 | int i; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/bitstring.c: In function 'bitstringIntersection': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/bitstring.c:106:7: warning: unused variable 'i' [-Wunused-variable] 106 | int i; | ^ [ 84%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rdkit_io.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/rdkit_io.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/rdkit_io.c [ 84%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rxn_op.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/rxn_op.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/rxn_op.c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/rxn_op.c:164:1: warning: multi-line comment [-Wcomment] 164 | // /* keep compiler quiet - no extra ; */ \ | ^ [ 84%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/sfp_op.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/gcc -DRDKITVER=\"007400\" -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DUSE_BUILTIN_POPCOUNT -Drdkit_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/pgsql/server -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/rdkit.dir/sfp_op.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/sfp_op.c [ 84%] Linking CXX shared library librdkit.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/cmake -E copy_directory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/sql /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/sql cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/cmake -E copy_directory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/data /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/data cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/cmake -E copy_directory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/expected /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/expected cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdkit.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,librdkit.so -o librdkit.so CMakeFiles/rdkit.dir/adapter.cpp.o CMakeFiles/rdkit.dir/bfp_op.c.o CMakeFiles/rdkit.dir/cache.c.o CMakeFiles/rdkit.dir/guc.c.o CMakeFiles/rdkit.dir/low_gist.c.o CMakeFiles/rdkit.dir/mol_op.c.o CMakeFiles/rdkit.dir/rdkit_gist.c.o CMakeFiles/rdkit.dir/bfp_gist.c.o CMakeFiles/rdkit.dir/bfp_gin.c.o CMakeFiles/rdkit.dir/bitstring.c.o CMakeFiles/rdkit.dir/rdkit_io.c.o CMakeFiles/rdkit.dir/rxn_op.c.o CMakeFiles/rdkit.dir/sfp_op.c.o -L/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/lib64 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/lib64:/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib -lpq ../../../lib/libRDKitRDInchiLib.so.1.2019.03.3 -linchi ../../../lib/libRDKitMolDraw2D.so.1.2019.03.3 ../../../lib/libRDKitMolHash.so.1.2019.03.3 ../../../lib/libRDKitFMCS.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 -lboost_serialization -lcairo ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/low_gist.c:410:30: warning: type of 'searchSfpCache' does not match original declaration [-Wlto-type-mismatch] 410 | fcinfo->flinfo->fn_extra = searchSfpCache( | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/cache.c:620:1: note: return value type mismatch 620 | searchSfpCache(void *cache, struct MemoryContextData * ctx, Datum a, | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/cache.c:620:1: note: 'searchSfpCache' was previously declared here /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/cache.c:620:1: note: code may be misoptimized unless '-fno-strict-aliasing' is used [ 85%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Tautomer.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Tautomer.cpp: In member function 'RDKit::ROMol* RDKit::MolStandardize::TautomerCanonicalizer::canonicalize(const RDKit::ROMol&, RDKit::MolStandardize::TautomerCatalog*)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Tautomer.cpp:37:19: warning: loop variable 't' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 37 | for (const auto t : tautomers) { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Tautomer.cpp:37:19: note: use reference type to prevent copying 37 | for (const auto t : tautomers) { | ^ | & make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 85%] Built target rdkit make -f External/INCHI-API/CMakeFiles/testInchi.dir/build.make External/INCHI-API/CMakeFiles/testInchi.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/CMakeFiles/testInchi.dir/DependInfo.cmake --color= Scanning dependencies of target testInchi make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/INCHI-API/CMakeFiles/testInchi.dir/build.make External/INCHI-API/CMakeFiles/testInchi.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 85%] Building CXX object External/INCHI-API/CMakeFiles/testInchi.dir/test.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_RDINCHILIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_INCHI_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testInchi.dir/test.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/test.cpp [ 85%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Fragment.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Fragment.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Fragment.cpp: In member function 'RDKit::ROMol* RDKit::MolStandardize::FragmentRemover::remove(const RDKit::ROMol&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Fragment.cpp:79:19: warning: loop variable 'frag' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 79 | for (const auto frag : | ^~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Fragment.cpp:79:19: note: use reference type to prevent copying 79 | for (const auto frag : | ^~~~ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Fragment.cpp:121:19: warning: loop variable 'frag' creates a copy from type 'const std::pair, unsigned int>' [-Wrange-loop-construct] 121 | for (const auto frag : frags) { | ^~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Fragment.cpp:121:19: note: use reference type to prevent copying 121 | for (const auto frag : frags) { | ^~~~ | & [ 85%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.cpp [ 85%] Linking CXX executable testInchi cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API && /usr/bin/cmake -E cmake_link_script CMakeFiles/testInchi.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testInchi.dir/test.cpp.o -o testInchi -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib -linchi ../../lib/libRDKitRDInchiLib.so.1.2019.03.3 -linchi ../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 85%] Built target testInchi make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake --color= Scanning dependencies of target testUFFForceField make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 85%] Building CXX object Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/testUFFForceField.cpp [ 85%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.cpp [ 85%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.cpp [ 85%] Linking CXX executable testUFFForceField cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceField.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -o testUFFForceField -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 85%] Built target testUFFForceField make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake --color= Scanning dependencies of target DistGeometry make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 85%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom && /usr/bin/g++ -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/DistGeomUtils.cpp [ 85%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.cpp [ 86%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.cpp [ 86%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom && /usr/bin/g++ -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/TriangleSmooth.cpp [ 86%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom && /usr/bin/g++ -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/DistViolationContrib.cpp [ 86%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp [ 87%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom && /usr/bin/g++ -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/ChiralViolationContrib.cpp [ 87%] Linking CXX shared library ../../lib/libRDKitDistGeometry.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeometry.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitDistGeometry.so.1 -o ../../lib/libRDKitDistGeometry.so.1.2019.03.3 CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../lib/libRDKitForceField.so.1.2019.03.3 ../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../lib/libRDKitDistGeometry.so.1 ../../lib/libRDKitDistGeometry.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 87%] Built target DistGeometry make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= Scanning dependencies of target MolAlign make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 87%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign && /usr/bin/g++ -DMolAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/AlignMolecules.cpp [ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.cpp [ 87%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/O3AAlignMolecules.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign && /usr/bin/g++ -DMolAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolAlign.dir/O3AAlignMolecules.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp [ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.cpp In member function 'boost::dynamic_bitset >::set(unsigned long, bool)', inlined from 'RDKit::MolAlign::O3A::O3A(int (*)(unsigned int, unsigned int, double, void*), double (*)(unsigned int, unsigned int, void*), double (*)(unsigned int, unsigned int, void*), void*, RDKit::ROMol&, RDKit::ROMol const&, int, int, boost::dynamic_bitset >*, boost::dynamic_bitset >*, bool, unsigned int, unsigned int, RDKit::MolAlign::O3AConstraintVect*, RDKit::ROMol*, RDKit::MolAlign::LAP*, RDKit::MolAlign::MolHistogram*, RDKit::MolAlign::MolHistogram*)' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp:1257:27: cc1plus: warning: 'this' pointer null [-Wnonnull] In file included from /usr/include/boost/dynamic_bitset.hpp:15, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/O3AAlignMolecules.h:27, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp:10: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp: In member function 'RDKit::MolAlign::O3A::O3A(int (*)(unsigned int, unsigned int, double, void*), double (*)(unsigned int, unsigned int, void*), double (*)(unsigned int, unsigned int, void*), void*, RDKit::ROMol&, RDKit::ROMol const&, int, int, boost::dynamic_bitset >*, boost::dynamic_bitset >*, bool, unsigned int, unsigned int, RDKit::MolAlign::O3AConstraintVect*, RDKit::ROMol*, RDKit::MolAlign::LAP*, RDKit::MolAlign::MolHistogram*, RDKit::MolAlign::MolHistogram*)': /usr/include/boost/dynamic_bitset/dynamic_bitset.hpp:1032:1: note: in a call to non-static member function 'boost::dynamic_bitset >::set(unsigned long, bool) [clone .part.0]' 1032 | dynamic_bitset::set(size_type pos, bool val) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Linking CXX shared library ../../../lib/libRDKitMolAlign.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolAlign.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitMolAlign.so.1 -o ../../../lib/libRDKitMolAlign.so.1.2019.03.3 CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o CMakeFiles/MolAlign.dir/O3AAlignMolecules.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../lib/libRDKitMolAlign.so.1 ../../../lib/libRDKitMolAlign.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 87%] Built target MolAlign make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake --color= Scanning dependencies of target rdForceField make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 87%] Building CXX object Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceField_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdForceField.dir/ForceField.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap/ForceField.cpp [ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap/ForceField.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 88%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.cpp [ 88%] Linking CXX shared library ../../../lib/libRDKitMolStandardize.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolStandardize.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitMolStandardize.so.1 -o ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_serialization [ 88%] Linking CXX shared module ../../../rdkit/ForceField/rdForceField.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceField.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/ForceField/rdForceField.so CMakeFiles/rdForceField.dir/ForceField.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Built target rdForceField make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake --color= Scanning dependencies of target testDistGeom make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Building CXX object Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom && /usr/bin/g++ -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/testDistGeom.cpp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../lib/libRDKitMolStandardize.so.1 ../../../lib/libRDKitMolStandardize.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Built target MolStandardize make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= Scanning dependencies of target DistGeom make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Building CXX object Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap && /usr/bin/g++ -DDistGeom_EXPORTS -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DistGeom.dir/DistGeom.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap/DistGeom.cpp [ 88%] Linking CXX executable testDistGeom cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeom.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -o testDistGeom -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../lib/libRDKitForceField.so.1.2019.03.3 ../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap/DistGeom.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Built target testDistGeom make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake --color= Scanning dependencies of target testReaction make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/testReaction.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testReaction.dir/testReaction.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/testReaction.cpp [ 89%] Linking CXX shared module ../../../rdkit/DistanceGeometry/DistGeom.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeom.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../rdkit/DistanceGeometry/DistGeom.so CMakeFiles/DistGeom.dir/DistGeom.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 89%] Built target DistGeom make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake --color= Scanning dependencies of target testReactionFingerprints make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 89%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/testReactionFingerprints.cpp [ 89%] Linking CXX executable testReactionFingerprints cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReactionFingerprints.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -o testReactionFingerprints -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 89%] Built target testReactionFingerprints make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake --color= Scanning dependencies of target testEnumeration make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 89%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Enumerate/testEnumerate.cpp [ 90%] Linking CXX executable testEnumeration cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testEnumeration.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -o testEnumeration -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 90%] Built target testEnumeration make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake --color= Scanning dependencies of target rxnTestCatch make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 90%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/g++ -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/catch_tests.cpp [ 91%] Linking CXX executable testReaction cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReaction.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testReaction.dir/testReaction.cpp.o -o testReaction -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 92%] Linking CXX executable rxnTestCatch cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/rxnTestCatch.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -o rxnTestCatch -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 92%] Built target testReaction make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake --color= Scanning dependencies of target rdChemReactions make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 92%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemReactions_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp:31: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 92%] Built target rxnTestCatch make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolAlign make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 92%] Building CXX object Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolAlign_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:14: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 93%] Linking CXX shared module ../../../../rdkit/Chem/rdMolAlign.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolAlign.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdMolAlign.so CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 93%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemReactions_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Built target rdMolAlign make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target testShapeHelpers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/testShapeHelpers.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/props.hpp:34, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:33: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 93%] Linking CXX executable testShapeHelpers cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testShapeHelpers.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -o testShapeHelpers -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitShapeHelpers.so.1.2019.03.3 ../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Built target testShapeHelpers make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= Scanning dependencies of target moldraw2DRxnTest1 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/rxn_test1.cpp [ 93%] Linking CXX executable moldraw2DRxnTest1 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DRxnTest1.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -o moldraw2DRxnTest1 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolDraw2D.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lcairo In function 'copy', inlined from '_S_copy' at /usr/include/c++/11/bits/basic_string.h:351:21, inlined from '_S_copy' at /usr/include/c++/11/bits/basic_string.h:346:7, inlined from '_M_replace' at /usr/include/c++/11/bits/basic_string.tcc:481:20, inlined from 'replace' at /usr/include/c++/11/bits/basic_string.h:1946:19, inlined from 'insert' at /usr/include/c++/11/bits/basic_string.h:1714:22, inlined from 'operator+' at /usr/include/c++/11/bits/basic_string.h:6154:23, inlined from 'test2' at /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/rxn_test1.cpp:196:67: /usr/include/c++/11/bits/char_traits.h:402:56: warning: '__builtin_memcpy' reading 12 bytes from a region of size 1 [-Wstringop-overread] 402 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ^ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Built target moldraw2DRxnTest1 make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= Scanning dependencies of target moldraw2DTestCatch make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/catch_tests.cpp [ 93%] Linking CXX shared module ../../../../rdkit/Chem/rdChemReactions.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemReactions.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdChemReactions.so CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Built target rdChemReactions make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake --color= Scanning dependencies of target moldraw2DTest1 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/test1.cpp [ 94%] Linking CXX executable moldraw2DTestCatch cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTestCatch.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -o moldraw2DTestCatch -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolDraw2D.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lcairo [ 94%] Linking CXX executable moldraw2DTest1 cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTest1.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -o moldraw2DTest1 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolDraw2D.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lcairo make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Built target moldraw2DTest1 make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolDraw2D make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Building CXX object Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_CAIRO_SUPPORT -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolDraw2D_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -isystem /usr/include/cairo -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Built target moldraw2DTestCatch make -f Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/DependInfo.cmake --color= Scanning dependencies of target testMolHash make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/testMolHash.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMolHash.dir/testMolHash.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/testMolHash.cpp [ 94%] Linking CXX executable testMolHash cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolHash.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMolHash.dir/testMolHash.cpp.o -o testMolHash -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolHash.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Built target testMolHash make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolHash make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Building CXX object Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolHash_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp [ 94%] Linking CXX shared module ../../../../rdkit/Chem/Draw/rdMolDraw2D.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDraw2D.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/Draw/rdMolDraw2D.so CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitMolDraw2D.so.1.2019.03.3 ../../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 -lcairo ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_serialization In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 95%] Linking CXX shared module ../../../../rdkit/Chem/rdMolHash.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolHash.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdMolHash.so CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitMolHash.so.1.2019.03.3 ../../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Built target rdMolHash make -f Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/DependInfo.cmake --color= Scanning dependencies of target testStructChecker make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Building CXX object Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/testStructChecker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_STRUCTCHECKER_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testStructChecker.dir/testStructChecker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/testStructChecker.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Built target rdMolDraw2D make -f Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build.make Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/DependInfo.cmake --color= Scanning dependencies of target rdStructChecker make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build.make Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Building CXX object Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/structchecker.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdStructChecker_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdStructChecker.dir/structchecker.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap/structchecker.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap/structchecker.cpp:32: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 95%] Linking CXX executable testStructChecker cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/cmake -E cmake_link_script CMakeFiles/testStructChecker.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testStructChecker.dir/testStructChecker.cpp.o -o testStructChecker -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitStructChecker.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Built target testStructChecker make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake --color= Scanning dependencies of target testRGroupDecomp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp [ 95%] Linking CXX shared module ../../../../rdkit/Chem/rdStructChecker.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdStructChecker.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdStructChecker.so CMakeFiles/rdStructChecker.dir/structchecker.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitStructChecker.so.1.2019.03.3 ../../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Built target rdStructChecker make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= Scanning dependencies of target rdRGroupDecomposition make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Building CXX object Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdRGroupDecomposition_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp: In function 'void testSDFGRoupMultiCoreNoneShouldMatch()': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp:838:13: warning: unused variable 'addedIndex' [-Wunused-variable] 838 | int addedIndex = decomp.add(*mol); | ^~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp: In function 'void testRowColumnAlignmentProblem()': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp:897:21: warning: loop variable 'row' creates a copy from type 'const std::map, boost::shared_ptr >' [-Wrange-loop-construct] 897 | for (const auto row : rows) { | ^~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp:897:21: note: use reference type to prevent copying 897 | for (const auto row : rows) { | ^~~ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp:910:21: warning: loop variable 'rg' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 910 | for (const auto rg : R1) { | ^~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp:910:21: note: use reference type to prevent copying 910 | for (const auto rg : R1) { | ^~ | & In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp:32: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 95%] Linking CXX executable testRGroupDecomp cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRGroupDecomp.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -o testRGroupDecomp -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitRGroupDecomposition.so.1.2019.03.3 ../../../lib/libRDKitFMCS.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Built target testRGroupDecomp make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= Scanning dependencies of target molStandardizeTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/molStandardizeTest.dir/test1.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/test1.cpp [ 96%] Linking CXX shared module ../../../../rdkit/Chem/rdRGroupDecomposition.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdRGroupDecomposition.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdRGroupDecomposition.so CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitRGroupDecomposition.so.1.2019.03.3 ../../../../lib/libRDKitFMCS.so.1.2019.03.3 ../../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [ 96%] Linking CXX executable molStandardizeTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/molStandardizeTest.dir/test1.cpp.o -o molStandardizeTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Built target rdRGroupDecomposition make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake --color= Scanning dependencies of target molNormalizeTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testNormalize.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Built target molStandardizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake --color= Scanning dependencies of target molValidateTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/testValidate.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/molValidateTest.dir/testValidate.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testValidate.cpp [ 96%] Linking CXX executable molNormalizeTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molNormalizeTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -o molNormalizeTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Built target molNormalizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake --color= Scanning dependencies of target molChargeTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/testCharge.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/molChargeTest.dir/testCharge.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testCharge.cpp [ 96%] Linking CXX executable molValidateTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molValidateTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/molValidateTest.dir/testValidate.cpp.o -o molValidateTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Built target molValidateTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake --color= Scanning dependencies of target molFragmentTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/testFragment.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testFragment.cpp [ 96%] Linking CXX executable molChargeTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molChargeTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/molChargeTest.dir/testCharge.cpp.o -o molChargeTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Built target molChargeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake --color= Scanning dependencies of target molTautomerTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 97%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testTautomer.cpp [ 97%] Linking CXX executable molFragmentTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molFragmentTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -o molFragmentTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_serialization make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 97%] Built target molFragmentTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= Scanning dependencies of target molStandardizeCatchTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 98%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/catch_tests.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testTautomer.cpp: In function 'void testEnumerator()': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testTautomer.cpp:745:19: warning: loop variable 'r' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 745 | for (const auto r : res66) { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testTautomer.cpp:745:19: note: use reference type to prevent copying 745 | for (const auto r : res66) { | ^ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testTautomer.cpp:768:19: warning: loop variable 'r' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 768 | for (const auto r : res67) { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/testTautomer.cpp:768:19: note: use reference type to prevent copying 768 | for (const auto r : res67) { | ^ | & [ 98%] Linking CXX executable molTautomerTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molTautomerTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -o molTautomerTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 98%] Built target molTautomerTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake --color= Scanning dependencies of target molStandardizeSmallTest make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 98%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/test2.cpp [ 98%] Linking CXX executable molStandardizeSmallTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeSmallTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -o molStandardizeSmallTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex -lboost_serialization ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 98%] Built target molStandardizeSmallTest make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake --color= Scanning dependencies of target rdMolStandardize make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/rdMolStandardize.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/rdMolStandardize.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable molStandardizeCatchTest cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeCatchTest.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -o molStandardizeCatchTest -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_serialization [ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Validate.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Validate.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Validate.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Charge.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Charge.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Charge.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 98%] Built target molStandardizeCatchTest make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target DistGeomHelpers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 98%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers && /usr/bin/g++ -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.cpp [ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [ 98%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers && /usr/bin/g++ -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp [ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp: In function 'bool RDKit::DGeomHelpers::EmbeddingOps::generateInitialCoords(RDGeom::PointPtrVect*, const RDKit::DGeomHelpers::detail::EmbedArgs&, const RDKit::DGeomHelpers::EmbedParameters&, RDNumeric::DoubleSymmMatrix&, RDKit::double_source_type*)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:310:23: warning: loop variable 'v' creates a copy from type 'const std::pair' [-Wrange-loop-construct] 310 | for (const auto v : *embedParams.coordMap) { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:310:23: note: use reference type to prevent copying 310 | for (const auto v : *embedParams.coordMap) { | ^ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp: In function 'bool RDKit::DGeomHelpers::EmbeddingOps::firstMinimization(RDGeom::PointPtrVect*, const RDKit::DGeomHelpers::detail::EmbedArgs&, const RDKit::DGeomHelpers::EmbedParameters&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:331:21: warning: loop variable 'v' creates a copy from type 'const std::pair' [-Wrange-loop-construct] 331 | for (const auto v : *embedParams.coordMap) { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:331:21: note: use reference type to prevent copying 331 | for (const auto v : *embedParams.coordMap) { | ^ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:339:21: warning: loop variable 'v' creates a copy from type 'const std::pair' [-Wrange-loop-construct] 339 | for (const auto v : *embedParams.coordMap) { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:339:21: note: use reference type to prevent copying 339 | for (const auto v : *embedParams.coordMap) { | ^ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp: In function 'bool RDKit::DGeomHelpers::EmbeddingOps::checkTetrahedralCenters(const PointPtrVect*, const RDKit::DGeomHelpers::detail::EmbedArgs&, const RDKit::DGeomHelpers::EmbedParameters&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:384:19: warning: loop variable 'tetSet' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 384 | for (const auto tetSet : *eargs.tetrahedralCarbons) { | ^~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:384:19: note: use reference type to prevent copying 384 | for (const auto tetSet : *eargs.tetrahedralCarbons) { | ^~~~~~ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp: In function 'bool RDKit::DGeomHelpers::EmbeddingOps::checkChiralCenters(const PointPtrVect*, const RDKit::DGeomHelpers::detail::EmbedArgs&, const RDKit::DGeomHelpers::EmbedParameters&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:408:19: warning: loop variable 'chiralSet' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 408 | for (const auto chiralSet : *eargs.chiralCenters) { | ^~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:408:19: note: use reference type to prevent copying 408 | for (const auto chiralSet : *eargs.chiralCenters) { | ^~~~~~~~~ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp: In function 'bool RDKit::DGeomHelpers::EmbeddingOps::minimizeFourthDimension(RDGeom::PointPtrVect*, const RDKit::DGeomHelpers::detail::EmbedArgs&, const RDKit::DGeomHelpers::EmbedParameters&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:437:21: warning: loop variable 'v' creates a copy from type 'const std::pair' [-Wrange-loop-construct] 437 | for (const auto v : *embedParams.coordMap) { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:437:21: note: use reference type to prevent copying 437 | for (const auto v : *embedParams.coordMap) { | ^ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp: In function 'bool RDKit::DGeomHelpers::EmbeddingOps::minimizeWithExpTorsions(RDGeom::PointPtrVect&, const RDKit::DGeomHelpers::detail::EmbedArgs&, const RDKit::DGeomHelpers::EmbedParameters&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:480:21: warning: loop variable 'v' creates a copy from type 'const std::pair' [-Wrange-loop-construct] 480 | for (const auto v : *embedParams.coordMap) { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:480:21: note: use reference type to prevent copying 480 | for (const auto v : *embedParams.coordMap) { | ^ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:503:23: warning: loop variable 'v' creates a copy from type 'const std::pair' [-Wrange-loop-construct] 503 | for (const auto v : *embedParams.coordMap) { | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:503:23: note: use reference type to prevent copying 503 | for (const auto v : *embedParams.coordMap) { | ^ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp: In function 'bool RDKit::DGeomHelpers::EmbeddingOps::finalChiralChecks(RDGeom::PointPtrVect*, const RDKit::DGeomHelpers::detail::EmbedArgs&, const RDKit::DGeomHelpers::EmbedParameters&)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:539:19: warning: loop variable 'chiralSet' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 539 | for (const auto chiralSet : *eargs.chiralCenters) { | ^~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:539:19: note: use reference type to prevent copying 539 | for (const auto chiralSet : *eargs.chiralCenters) { | ^~~~~~~~~ | & /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:560:19: warning: loop variable 'chiralSet' creates a copy from type 'const boost::shared_ptr' [-Wrange-loop-construct] 560 | for (const auto chiralSet : *eargs.chiralCenters) { | ^~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:560:19: note: use reference type to prevent copying 560 | for (const auto chiralSet : *eargs.chiralCenters) { | ^~~~~~~~~ | & In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp: In function 'RDKit::DGeomHelpers::EmbeddingOps::embedPoints(std::vector >*, RDKit::DGeomHelpers::detail::EmbedArgs, RDKit::DGeomHelpers::EmbedParameters, int)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:653:12: warning: 'distrib' may be used uninitialized in this function [-Wmaybe-uninitialized] 653 | delete distrib; | ^~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:652:12: warning: 'generator' may be used uninitialized in this function [-Wmaybe-uninitialized] 652 | delete generator; | ^~~~~~~~~ [ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Metal.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Metal.cpp [ 99%] Linking CXX shared library ../../../lib/libRDKitDistGeomHelpers.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeomHelpers.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libRDKitDistGeomHelpers.so.1 -o ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.3 CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap.h:20, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/Metal.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp: In function 'embedPoints': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:653:12: warning: 'distrib' may be used uninitialized in this function [-Wmaybe-uninitialized] 653 | delete distrib; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:591:26: note: 'distrib' was declared here 591 | RDKit::uniform_double *distrib; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:652:12: warning: 'generator' may be used uninitialized in this function [-Wmaybe-uninitialized] 652 | delete generator; | ^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Embedder.cpp:590:20: note: 'generator' was declared here 590 | RDKit::rng_type *generator; | ^ cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.3 ../../../lib/libRDKitDistGeomHelpers.so.1 ../../../lib/libRDKitDistGeomHelpers.so make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 99%] Built target DistGeomHelpers make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= Scanning dependencies of target testMMFFForceField make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 99%] Building CXX object Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/testMMFFForceField.cpp [ 99%] Linking CXX shared module ../../../../rdkit/Chem/MolStandardize/rdMolStandardize.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolStandardize.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -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 -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitMolStandardize.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitChemReactions.so.1.2019.03.3 ../../../../lib/libRDKitFilterCatalog.so.1.2019.03.3 ../../../../lib/libRDKitCatalogs.so.1.2019.03.3 ../../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitFingerprints.so.1.2019.03.3 ../../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitChemTransforms.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_serialization make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 99%] Built target rdMolStandardize make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target testMMFFForceFieldHelpers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 99%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFHelpers.cpp [100%] Linking CXX executable testMMFFForceField cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceField.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -o testMMFFForceField -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.3 ../../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread [100%] Linking CXX executable testMMFFForceFieldHelpers cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -o testMMFFForceFieldHelpers -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.3 ../../../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Built target testMMFFForceFieldHelpers make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target testUFFForceFieldHelpers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Building CXX object Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Built target testMMFFForceField make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake --color= Scanning dependencies of target testCrystalForceField make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Building CXX object Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalFF.cpp [100%] Linking CXX executable testCrystalForceField cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCrystalForceField.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -o testCrystalForceField -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.3 ../../../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Built target testCrystalForceField make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= Scanning dependencies of target testDistGeomHelpers make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers && /usr/bin/g++ -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp [100%] Linking CXX executable testUFFForceFieldHelpers cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -o testUFFForceFieldHelpers -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.3 ../../../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Built target testUFFForceFieldHelpers make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= Scanning dependencies of target rdDistGeom make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Building CXX object Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/g++ -DBOOST_PYTHON_MAX_ARITY=32 -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDistGeom_EXPORTS -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -fPIC -std=gnu++11 -o CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp In file included from /usr/include/boost/bind.hpp:30, from /usr/include/boost/python/exception_translator.hpp:10, from /usr/include/boost/python.hpp:28, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/python.h:3, from /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable testDistGeomHelpers cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeomHelpers.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -o testDistGeomHelpers -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.3 ../../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread -lboost_system -lboost_iostreams -lboost_regex [100%] Linking CXX shared module ../../../../rdkit/Chem/rdDistGeom.so cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDistGeom.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -o ../../../../rdkit/Chem/rdDistGeom.so CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib: ../../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.3 ../../../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../../lib/libRDKitRDBoost.so.1.2019.03.3 -lpython3.9 -lboost_python39 -lboost_serialization ../../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Built target rdDistGeom make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake --color= Scanning dependencies of target testMolAlign make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign && /usr/bin/g++ -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_64BIT_BUILD -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/usr/include/inchi -I/usr/include/python3.9 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/boost-numeric-bindings -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -std=gnu++11 -o CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/testMolAlign.cpp make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Built target testDistGeomHelpers [100%] Linking CXX executable testMolAlign cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolAlign.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -g -DNDEBUG -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -rdynamic CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -o testMolAlign -Wl,-rpath,/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/lib ../../../lib/libRDKitMolAlign.so.1.2019.03.3 ../../../lib/libRDKitDescriptors.so.1.2019.03.3 ../../../lib/libRDKitFileParsers.so.1.2019.03.3 ../../../lib/libRDKitDistGeomHelpers.so.1.2019.03.3 ../../../lib/libRDKitDistGeometry.so.1.2019.03.3 ../../../lib/libRDKitDepictor.so.1.2019.03.3 -lboost_system -lboost_iostreams -lboost_regex ../../../lib/libRDKitMolTransforms.so.1.2019.03.3 ../../../lib/libRDKitPartialCharges.so.1.2019.03.3 ../../../lib/libRDKitSubgraphs.so.1.2019.03.3 ../../../lib/libRDKitForceFieldHelpers.so.1.2019.03.3 ../../../lib/libRDKitSmilesParse.so.1.2019.03.3 ../../../lib/libRDKitSubstructMatch.so.1.2019.03.3 ../../../lib/libRDKitForceField.so.1.2019.03.3 ../../../lib/libRDKitOptimizer.so.1.2019.03.3 ../../../lib/libRDKitTrajectory.so.1.2019.03.3 ../../../lib/libRDKitGraphMol.so.1.2019.03.3 ../../../lib/libRDKitEigenSolvers.so.1.2019.03.3 ../../../lib/libRDKitAlignment.so.1.2019.03.3 ../../../lib/libRDKitRDGeometryLib.so.1.2019.03.3 ../../../lib/libRDKitDataStructs.so.1.2019.03.3 ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Built target testMolAlign make[1]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/CMakeFiles 0 + pushd Code/PgSQL/rdkit ~/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit ~/build/BUILD/rdkit-Release_2019_03_3/python3 ~/build/BUILD/rdkit-Release_2019_03_3 + chrpath -d librdkit.so + popd ~/build/BUILD/rdkit-Release_2019_03_3/python3 ~/build/BUILD/rdkit-Release_2019_03_3 ~/build/BUILD/rdkit-Release_2019_03_3 + popd + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.mLkypc + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64 ++ dirname /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64 + cd rdkit-Release_2019_03_3 ~/build/BUILD/rdkit-Release_2019_03_3/python3 ~/build/BUILD/rdkit-Release_2019_03_3 + pushd python3 + make install DESTDIR=/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64 /usr/bin/cmake -S/builddir/build/BUILD/rdkit-Release_2019_03_3/python3 -B/builddir/build/BUILD/rdkit-Release_2019_03_3/python3 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/CMakeFiles /builddir/build/BUILD/rdkit-Release_2019_03_3/python3//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[1]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/catch/CMakeFiles/catch.dir/build.make External/catch/CMakeFiles/catch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/catch /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/catch /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/catch/CMakeFiles/catch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/catch/CMakeFiles/catch.dir/build.make External/catch/CMakeFiles/catch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'External/catch/CMakeFiles/catch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 0%] Built target catch make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/CMakeFiles/RDGeneral.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/RDGeneral.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 2%] Built target RDGeneral make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DataStructs/CMakeFiles/DataStructs.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 4%] Built target DataStructs make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Geometry/CMakeFiles/RDGeometryLib.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 5%] Built target RDGeometryLib make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/GraphMol.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 10%] Built target GraphMol make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 10%] Built target EigenSolvers make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 10%] Built target MolTransforms make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 10%] Built target SubstructMatch make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 10%] Built target Depictor make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 11%] Built target SmilesParse make -f External/INCHI-API/CMakeFiles/RDInchiLib.dir/build.make External/INCHI-API/CMakeFiles/RDInchiLib.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/CMakeFiles/RDInchiLib.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/INCHI-API/CMakeFiles/RDInchiLib.dir/build.make External/INCHI-API/CMakeFiles/RDInchiLib.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'External/INCHI-API/CMakeFiles/RDInchiLib.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 11%] Built target RDInchiLib make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 15%] Built target FileParsers make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 15%] Built target Subgraphs make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 15%] Built target PartialCharges make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Built target Descriptors make -f External/INCHI-API/CMakeFiles/testInchi.dir/build.make External/INCHI-API/CMakeFiles/testInchi.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/CMakeFiles/testInchi.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/INCHI-API/CMakeFiles/testInchi.dir/build.make External/INCHI-API/CMakeFiles/testInchi.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'External/INCHI-API/CMakeFiles/testInchi.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Built target testInchi make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API && /usr/bin/cmake -E copy /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/python/inchi.py /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/rdkit/Chem/inchi.py make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Built target inchi_support make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/RDBoost/CMakeFiles/RDBoost.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Built target RDBoost make -f External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build.make External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build.make External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Built target rdinchi make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/CoordGen /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/CoordGen /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'External/CoordGen/CMakeFiles/coordgen_support.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Built target coordgen_support make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testRDValue.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 17%] Built target testRDValue make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testDict.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 18%] Built target testDict make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 19%] Built target rdBase make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDStreams /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDStreams /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDStreams/CMakeFiles/RDStreams.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/RDStreams/CMakeFiles/RDStreams.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 19%] Built target RDStreams make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testMultiFPB.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 19%] Built target testMultiFPB make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testFPB.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 19%] Built target testFPB make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testDataStructs.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 20%] Built target testDataStructs make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 22%] Built target cDataStructs make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Geometry/CMakeFiles/testGrid.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 22%] Built target testGrid make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Geometry/CMakeFiles/testTransforms.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] Built target testTransforms make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Built target rdGeometry make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Numerics/CMakeFiles/testMatrices.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Built target testMatrices make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Built target Alignment make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Built target testAlignment make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Built target rdAlignment make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 24%] Built target Trajectory make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 25%] Built target Optimizer make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 26%] Built target testOptimizer make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ForceField/CMakeFiles/ForceField.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 29%] Built target ForceField make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 30%] Built target ForceFieldHelpers make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 30%] Built target testUFFForceField make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DistGeom/CMakeFiles/DistGeometry.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target DistGeometry make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target DistGeomHelpers make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target MolAlign make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 32%] Built target testMMFFForceField make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 32%] Built target rdForceField make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DistGeom/CMakeFiles/testDistGeom.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 32%] Built target testDistGeom make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 33%] Built target DistGeom make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Catalogs/CMakeFiles/Catalogs.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 33%] Built target Catalogs make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 33%] Built target graphmolSGroupCatch make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 34%] Built target graphmolTestsCatch make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/molBundleTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target molBundleTest make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/testSGroup.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target testSGroup make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target graphmoltestPicklerGlobalSetting make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target graphmoltestChirality make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target graphmolcpTest make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target graphmolqueryTest make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTest1.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target graphmolTest1 make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 35%] Built target resMolSupplierTest make -f Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestCanon.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 36%] Built target graphmoltestCanon make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 37%] Built target graphmolMolOpsTest make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/hanoiTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 38%] Built target hanoiTest make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/test-valgrind.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target test-valgrind make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target graphmoltestPickler make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target graphmolIterTest make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target graphmolMemTest1 make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target ChemTransforms make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target testDepictor make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target rdDepictor make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target smaTest1 make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target smiTest1 make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target smiTestCatch make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 39%] Built target cxsmilesTest make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Built target smiTest2 make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Built target testMolWriter make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Built target fileParsersTest1 make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Built target testMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Built target testExtendedStereoParsing make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Built target testTplParser make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Built target testMol2ToMol make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 40%] Built target testSequence make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Built target fileParsersCatchTest make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Built target testPropertyLists make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Built target testSubstructMatch make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Built target substructTestCatch make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 42%] Built target FilterCatalog make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 44%] Built target Fingerprints make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 47%] Built target ChemReactions make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 48%] Built target testReaction make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 48%] Built target testReactionFingerprints make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 49%] Built target testEnumeration make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 50%] Built target rxnTestCatch make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 50%] Built target rdChemReactions make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 51%] Built target testChemTransforms make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 52%] Built target testSubgraphs2 make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 52%] Built target testSubgraphs1 make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 52%] Built target filterCatalogTest make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 53%] Built target rdfiltercatalog make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 54%] Built target FragCatalog make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 55%] Built target testFragCatalog make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] Built target rdfragcatalog make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] Built target testAUTOCORR2D make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] Built target testDescriptors make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] Built target rdMolDescriptors make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 57%] Built target fpTestCatch make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 57%] Built target testFingerprintGenerators make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 57%] Built target testFingerprints make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 58%] Built target rdFingerprintGenerator make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 58%] Built target testPartialCharges make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 58%] Built target rdPartialCharges make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target testMolTransforms make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target rdMolTransforms make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target testMMFFForceFieldHelpers make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target testUFFForceFieldHelpers make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target testCrystalForceField make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target rdForceFieldHelpers make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target testDistGeomHelpers make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target rdDistGeom make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 59%] Built target testMolAlign make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 60%] Built target rdMolAlign make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 60%] Built target MolChemicalFeatures make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 61%] Built target testFeatures make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 62%] Built target rdMolChemicalFeatures make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 62%] Built target ShapeHelpers make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 62%] Built target testShapeHelpers make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 63%] Built target rdShapeHelpers make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 64%] Built target MolCatalog make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 65%] Built target testMolCatalog make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 65%] Built target rdMolCatalog make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Built target MolDraw2D make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Built target moldraw2DRxnTest1 make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Built target moldraw2DTestCatch make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 67%] Built target moldraw2DTest1 make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 67%] Built target rdMolDraw2D make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target FMCS make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target testFMCS make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target rdFMCS make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Test /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Test /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target FMCStest make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Built target MolHash make -f Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolHash/CMakeFiles/testMolHash.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 69%] Built target testMolHash make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 70%] Built target rdMolHash make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 71%] Built target MMPA make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 71%] Built target testMMPA make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 71%] Built target rdMMPA make -f Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/StructChecker/CMakeFiles/StructChecker.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 73%] Built target StructChecker make -f Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build.make Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/StructChecker/CMakeFiles/testStructChecker.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 73%] Built target testStructChecker make -f Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build.make Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build.make Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/StructChecker/Wrap/CMakeFiles/rdStructChecker.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 73%] Built target rdStructChecker make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 74%] Built target ReducedGraphs make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 74%] Built target testReducedGraphs make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 74%] Built target rdReducedGraphs make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 75%] Built target trajectoryTest make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 76%] Built target SubstructLibrary make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 76%] Built target substructLibraryTest make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Built target rdSubstructLibrary make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Built target RGroupDecomposition make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] Built target testRGroupDecomp make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 78%] Built target rdRGroupDecomposition make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 79%] Built target SLNParse make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 80%] Built target testSLNParse make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 80%] Built target rdSLNParse make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 82%] Built target rdchem make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 82%] Built target rdmolops make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 83%] Built target rdqueries make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 85%] Built target rdmolfiles make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 85%] Built target rdtrajectory make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Built target MolStandardize make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Built target molStandardizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Built target molNormalizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Built target molValidateTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Built target molChargeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 88%] Built target molFragmentTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 89%] Built target molTautomerTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 90%] Built target molStandardizeCatchTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 90%] Built target molStandardizeSmallTest make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 91%] Built target rdMolStandardize make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Query /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Query /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/Query/CMakeFiles/testQuery.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 92%] Built target testQuery make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Built target testMatCalc make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Built target rdMetricMatrixCalc make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Built target hc make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Built target SimDivPickers make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Built target testSimDivPickers make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Built target rdSimDivPickers make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Built target Clustering make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 95%] Built target InfoTheory make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Built target rdInfoTheory make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ML/Data/CMakeFiles/cQuantize.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Built target cQuantize make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 97%] Built target ChemicalFeatures make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 97%] Built target testChemicalFeatures make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 98%] Built target rdChemicalFeatures make -f Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build.make Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/depend make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/DependInfo.cmake --color= make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build.make Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[2]: Nothing to be done for 'Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Built target rdkit make[1]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[1]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make[1]: Nothing to be done for 'preinstall'. make[1]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "RelWithDebInfo" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/cmake/rdkit/rdkit-targets.cmake -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/cmake/rdkit/rdkit-targets-relwithdebinfo.cmake -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/cmake/rdkit/rdkit-config.cmake -- Installing: 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"/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdinchi.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeneral.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeneral.so.1 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeneral.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/Exceptions.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/BadFileException.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/BoostStartInclude.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/BoostEndInclude.h -- Installing: 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/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/RDProps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/RDThreads.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/StreamOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/types.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/utils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/versions.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/RDConfig.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/LocaleSwitcher.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/Ranking.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/hanoiSort.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/export.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/test.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/hash/hash -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/hash/hash/hash_fwd.hpp -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/hash/hash/hash.hpp -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/hash/hash/extensions.hpp -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/hash/hash/detail -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/hash/hash/detail/hash_float.hpp -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDGeneral/hash/hash/detail/float_functions.hpp -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDBoost.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDBoost.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDBoost.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDBoost.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDBoost/Wrap.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDBoost/PySequenceHolder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDBoost/list_indexing_suite.hpp -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDBoost/python.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDBoost/boost_numpy.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/RDBoost/python_streambuf.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/rdBase.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/rdBase.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so.1 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDataStructs.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDataStructs.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDataStructs.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDataStructs.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/base64.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/BitOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/BitVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/BitVects.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/BitVectUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/DatastructsException.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/DatastructsStreamOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/DiscreteDistMat.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/DiscreteValueVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/ExplicitBitVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/SparseBitVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/SparseIntVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/FPBReader.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataStructs/MultiFPBReader.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/DataStructs/cDataStructs.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/DataStructs/cDataStructs.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeometryLib.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Geometry/Grid3D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Geometry/GridUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Geometry/point.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Geometry/Transform2D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Geometry/Transform3D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Geometry/Transform.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Geometry/UniformGrid3D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Geometry/Utils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Geometry/rdGeometry.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Geometry/rdGeometry.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Numerics/Matrix.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Numerics/SquareMatrix.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Numerics/SymmMatrix.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Numerics/Vector.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitAlignment.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitAlignment.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitAlignment.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitAlignment.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Numerics/Alignment/AlignPoints.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Numerics/rdAlignment.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Numerics/rdAlignment.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitEigenSolvers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitEigenSolvers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitEigenSolvers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitEigenSolvers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Numerics/EigenSolvers/PowerEigenSolver.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitOptimizer.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitOptimizer.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitOptimizer.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitOptimizer.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Numerics/Optimizer/BFGSOpt.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceField.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceField.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceField.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceField.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/Contrib.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/ForceField.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/AngleBend.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/BondStretch.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/Contribs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/DistanceConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/AngleConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/TorsionConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/PositionConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/Nonbonded.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/Params.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/Inversion.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/UFF/TorsionAngle.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/AngleBend.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/BondStretch.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/StretchBend.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/OopBend.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/TorsionAngle.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/Nonbonded.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/Contribs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/DistanceConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/AngleConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/TorsionConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/PositionConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ForceField/MMFF/Params.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/ForceField/rdForceField.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/ForceField/rdForceField.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeometry.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeometry.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeometry.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeometry.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DistGeom/BoundsMatrix.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DistGeom/ChiralSet.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DistGeom/ChiralViolationContrib.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DistGeom/DistGeomUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DistGeom/DistViolationContrib.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DistGeom/FourthDimContrib.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DistGeom/TriangleSmooth.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/DistanceGeometry/DistGeom.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/DistanceGeometry/DistGeom.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitCatalogs.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitCatalogs.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitCatalogs.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitCatalogs.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Catalogs/CatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Catalogs/Catalog.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Catalogs/CatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitGraphMol.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitGraphMol.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitGraphMol.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitGraphMol.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Atom.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/atomic_data.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/AtomIterators.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Bond.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/BondIterators.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Canon.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Chirality.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Conformer.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/details.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/GraphMol.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolPickler.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/PeriodicTable.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/QueryAtom.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/QueryBond.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/QueryOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/RDKitBase.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/RDKitQueries.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Resonance.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/RingInfo.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Rings.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ROMol.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/RWMol.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SanitException.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SubstanceGroup.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/StereoGroup.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MonomerInfo.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/new_canon.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolBundle.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDepictor.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDepictor.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDepictor.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDepictor.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Depictor/DepictUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Depictor/EmbeddedFrag.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Depictor/RDDepictor.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdDepictor.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdDepictor.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSmilesParse.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSmilesParse.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSmilesParse.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSmilesParse.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SmilesParse/primes.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SmilesParse/SmartsWrite.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SmilesParse/SmilesParse.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SmilesParse/SmilesParseOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SmilesParse/SmilesWrite.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFileParsers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFileParsers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFileParsers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFileParsers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FileParsers/FileParsers.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FileParsers/FileParserUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FileParsers/MolFileStereochem.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FileParsers/MolSupplier.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FileParsers/MolWriters.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FileParsers/SequenceParsers.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FileParsers/SequenceWriters.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubstructMatch.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubstructMatch.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubstructMatch.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubstructMatch.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Substruct/SubstructMatch.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Substruct/SubstructUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemReactions.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemReactions.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemReactions.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemReactions.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/Reaction.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionParser.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionPickler.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionFingerprints.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionRunner.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/PreprocessRxn.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/SanitizeRxn.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/Enumerate.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/EnumerateBase.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/EnumerationPickler.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/EnumerationStrategyBase.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/CartesianProduct.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/RandomSample.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemReactions/RandomSampleAllBBs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdChemReactions.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdChemReactions.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemTransforms.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemTransforms.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemTransforms.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemTransforms.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemTransforms/ChemTransforms.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ChemTransforms/MolFragmenter.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubgraphs.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubgraphs.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubgraphs.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubgraphs.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Subgraphs/Subgraphs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Subgraphs/SubgraphUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFilterCatalog.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFilterCatalog.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFilterCatalog.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFilterCatalog.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalog.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatcherBase.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatchers.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdfiltercatalog.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdfiltercatalog.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFragCatalog.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFragCatalog.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFragCatalog.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFragCatalog.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragCatGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragCatParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragFPGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdfragcatalog.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdfragcatalog.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDescriptors.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDescriptors.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDescriptors.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDescriptors.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/Crippen.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/Lipinski.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/MolDescriptors.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/MolSurf.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/ConnectivityDescriptors.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/MQN.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/RegisterDescriptor.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/Property.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/AUTOCORR2D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/Data3Ddescriptors.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/MolData3Ddescriptors.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Descriptors/USRDescriptor.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolDescriptors.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolDescriptors.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFingerprints.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFingerprints.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFingerprints.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFingerprints.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/AtomPairs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/Fingerprints.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/MorganFingerprints.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/MACCS.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/FingerprintGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/AtomPairGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/MorganGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/RDKitFPGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/TopologicalTorsionGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Fingerprints/FingerprintUtil.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdFingerprintGenerator.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdFingerprintGenerator.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitPartialCharges.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitPartialCharges.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitPartialCharges.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitPartialCharges.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/PartialCharges/GasteigerCharges.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/PartialCharges/GasteigerParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdPartialCharges.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdPartialCharges.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolTransforms.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolTransforms.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolTransforms.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolTransforms.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolTransforms/MolTransforms.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolTransforms.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolTransforms.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceFieldHelpers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/Builder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/UFF.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/Builder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/MMFF.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdForceFieldHelpers.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdForceFieldHelpers.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeomHelpers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/DistGeomHelpers/Embedder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdDistGeom.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdDistGeom.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolAlign.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolAlign.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolAlign.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolAlign.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolAlign/AlignMolecules.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolAlign/O3AAlignMolecules.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolAlign.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolAlign.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolChemicalFeatures/FeatureParser.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeature.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolChemicalFeatures.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolChemicalFeatures.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitShapeHelpers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitShapeHelpers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitShapeHelpers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitShapeHelpers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeEncoder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdShapeHelpers.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdShapeHelpers.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolCatalog.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolCatalog.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolCatalog.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolCatalog.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolCatalog/MolCatalog.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolCatalog.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolCatalog.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DSVG.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2Dwx.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DDetails.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolDraw2D.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolDraw2D.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolDraw2D.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolDraw2D.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DCairo.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/Draw/rdMolDraw2D.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/Draw/rdMolDraw2D.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFMCS.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFMCS.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFMCS.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFMCS.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FMCS/FMCS.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FMCS/Graph.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FMCS/Seed.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FMCS/SeedSet.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FMCS/MatchTable.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FMCS/RingMatchTableSet.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FMCS/SubstructureCache.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FMCS/SubstructMatchCustom.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/FMCS/MaximumCommonSubgraph.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdFMCS.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdFMCS.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolHash.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolHash.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolHash.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolHash.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolHash/MolHash.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolHash.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMolHash.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMMPA.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMMPA.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMMPA.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMMPA.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MMPA/MMPA.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMMPA.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdMMPA.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitStructChecker.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitStructChecker.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitStructChecker.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitStructChecker.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/StructChecker/StructChecker.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/StructChecker/Utilites.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/StructChecker/Pattern.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/StructChecker/Stereo.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/StructChecker/StripSmallFragments.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/StructChecker/ReCharge.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/StructChecker/Tautomer.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdStructChecker.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdStructChecker.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitReducedGraphs.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitReducedGraphs.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitReducedGraphs.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitReducedGraphs.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/ReducedGraphs/ReducedGraphs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdReducedGraphs.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdReducedGraphs.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitTrajectory.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitTrajectory.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitTrajectory.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitTrajectory.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Trajectory/Snapshot.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/Trajectory/Trajectory.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubstructLibrary.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubstructLibrary.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubstructLibrary.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSubstructLibrary.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrary.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdSubstructLibrary.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdSubstructLibrary.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRGroupDecomposition.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRGroupDecomposition.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRGroupDecomposition.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRGroupDecomposition.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecomp.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdRGroupDecomposition.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdRGroupDecomposition.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSLNParse.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSLNParse.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSLNParse.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSLNParse.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SLNParse/SLNAttribs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SLNParse/SLNParse.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/SLNParse/SLNParseOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdSLNParse.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdSLNParse.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdchem.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdchem.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdmolops.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdmolops.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdqueries.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdqueries.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdmolfiles.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdmolfiles.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdtrajectory.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdtrajectory.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolStandardize.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolStandardize.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolStandardize.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolStandardize.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/MolStandardize.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Metal.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Normalize.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Validate.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Charge.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Tautomer.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Fragment.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/MolStandardize/rdMolStandardize.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/MolStandardize/rdMolStandardize.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/AndQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/EqualityQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/GreaterEqualQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/GreaterQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/LessEqualQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/LessQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/OrQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/Query.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/QueryObjects.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/RangeQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/SetQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Query/XOrQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/Features/Feature.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricFuncs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricMatrixCalc.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/DataManip/Metric/rdMetricMatrixCalc.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/DataManip/Metric/rdMetricMatrixCalc.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSimDivPickers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSimDivPickers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSimDivPickers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitSimDivPickers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/SimDivPickers/DistPicker.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/SimDivPickers/HierarchicalClusterPicker.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/SimDivPickers/MaxMinPicker.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKithc.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKithc.so.1 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKithc.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/ML/Cluster/Clustering.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/ML/Cluster/Clustering.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitInfoTheory.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitInfoTheory.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitInfoTheory.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitInfoTheory.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/ML/InfoTheory/rdInfoTheory.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/ML/InfoTheory/rdInfoTheory.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/ML/Data/cQuantize.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/ML/Data/cQuantize.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemicalFeatures.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ChemicalFeatures/ChemicalFeature.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/include/rdkit/ChemicalFeatures/FreeChemicalFeature.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdChemicalFeatures.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/rdChemicalFeatures.so" to "" -- Up-to-date: /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/RDPaths.py + pushd Code/PgSQL/rdkit ~/build/BUILD/rdkit-Release_2019_03_3/python3/Code/PgSQL/rdkit ~/build/BUILD/rdkit-Release_2019_03_3/python3 ~/build/BUILD/rdkit-Release_2019_03_3 + install -D librdkit.so /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/pgsql/rdkit.so + install -D rdkit.control /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/pgsql/extension/rdkit.control + install -D rdkit--3.7.sql /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/pgsql/extension/rdkit--3.7.sql + popd ~/build/BUILD/rdkit-Release_2019_03_3/python3 ~/build/BUILD/rdkit-Release_2019_03_3 ~/build/BUILD/rdkit-Release_2019_03_3 + popd + rm -r /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64//usr/share/RDKit + FMCS=/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/fmcs/fmcs + sed '1{\@^#!/usr/bin/python3@d}' /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/fmcs/fmcs.py + touch -r /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/fmcs/fmcs.py /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/fmcs/fmcs.new + mv /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/fmcs/fmcs.new /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/fmcs/fmcs.py + rm /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Chem/fmcs/fmcs + /usr/lib/rpm/find-debuginfo.sh -j2 --strict-build-id -m -i --build-id-seed 2019.03.3-13.fc34 --unique-debug-suffix -2019.03.3-13.fc34.x86_64 --unique-debug-src-base rdkit-2019.03.3-13.fc34.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/rdkit-Release_2019_03_3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitAlignment.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitAlignment.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitCatalogs.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitCatalogs.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemReactions.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemReactions.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemTransforms.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemTransforms.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDataStructs.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDataStructs.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDepictor.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDepictor.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDescriptors.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDescriptors.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeometry.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitDistGeometry.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitEigenSolvers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitEigenSolvers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFMCS.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFMCS.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFileParsers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFileParsers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFilterCatalog.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFilterCatalog.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFingerprints.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFingerprints.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceField.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceField.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFragCatalog.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitFragCatalog.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitGraphMol.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitGraphMol.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitInfoTheory.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitInfoTheory.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMMPA.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMMPA.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolAlign.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolAlign.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolCatalog.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolCatalog.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolDraw2D.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolDraw2D.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolHash.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolHash.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolStandardize.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolStandardize.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolTransforms.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitMolTransforms.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitOptimizer.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitOptimizer.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitPartialCharges.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitPartialCharges.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDBoost.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDBoost.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeneral.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeneral.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in 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/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/ML/InfoTheory/rdInfoTheory.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Numerics/rdAlignment.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/Numerics/rdAlignment.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/rdBase.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9/site-packages/rdkit/rdBase.so original debug info size: 442528kB, size after compression: 330840kB /usr/lib/rpm/sepdebugcrcfix: Updated 90 CRC32s, 0 CRC32s did match. 14500 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 Bytecompiling .py files below /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib/debug/usr/lib64/python3.9 using /usr/bin/python3.9 Bytecompiling .py files below /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/lib64/python3.9 using /usr/bin/python3.9 + /usr/lib/rpm/brp-python-hardlink + /usr/lib/rpm/redhat/brp-mangle-shebangs *** WARNING: ./usr/share/pgsql/extension/rdkit--3.7.sql is executable but has no shebang, removing executable bit *** WARNING: ./usr/share/pgsql/extension/rdkit.control is executable but has no shebang, removing executable bit Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.jD5utP + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + RPM_EC=0 ++ jobs -p + exit 0 Processing files: rdkit-2019.03.3-13.fc34.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.VHHtJ0 + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + DOCDIR=/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/doc/rdkit + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/doc/rdkit + cp -pr ReleaseNotes.md /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/doc/rdkit + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.NihsOP + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + LICENSEDIR=/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/licenses/rdkit + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/licenses/rdkit + cp -pr license.txt /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/licenses/rdkit + RPM_EC=0 ++ jobs -p + exit 0 Provides: libRDKitAlignment.so.1()(64bit) libRDKitCatalogs.so.1()(64bit) libRDKitChemReactions.so.1()(64bit) libRDKitChemTransforms.so.1()(64bit) libRDKitChemicalFeatures.so.1()(64bit) libRDKitDataStructs.so.1()(64bit) libRDKitDepictor.so.1()(64bit) libRDKitDescriptors.so.1()(64bit) libRDKitDistGeomHelpers.so.1()(64bit) libRDKitDistGeometry.so.1()(64bit) libRDKitEigenSolvers.so.1()(64bit) libRDKitFMCS.so.1()(64bit) libRDKitFileParsers.so.1()(64bit) libRDKitFilterCatalog.so.1()(64bit) libRDKitFingerprints.so.1()(64bit) libRDKitForceField.so.1()(64bit) libRDKitForceFieldHelpers.so.1()(64bit) libRDKitFragCatalog.so.1()(64bit) libRDKitGraphMol.so.1()(64bit) libRDKitInfoTheory.so.1()(64bit) libRDKitMMPA.so.1()(64bit) libRDKitMolAlign.so.1()(64bit) libRDKitMolCatalog.so.1()(64bit) libRDKitMolChemicalFeatures.so.1()(64bit) libRDKitMolDraw2D.so.1()(64bit) libRDKitMolHash.so.1()(64bit) libRDKitMolStandardize.so.1()(64bit) libRDKitMolTransforms.so.1()(64bit) libRDKitOptimizer.so.1()(64bit) libRDKitPartialCharges.so.1()(64bit) libRDKitRDBoost.so.1()(64bit) libRDKitRDGeneral.so.1()(64bit) libRDKitRDGeometryLib.so.1()(64bit) libRDKitRDInchiLib.so.1()(64bit) libRDKitRDStreams.so.1()(64bit) libRDKitRGroupDecomposition.so.1()(64bit) libRDKitReducedGraphs.so.1()(64bit) libRDKitSLNParse.so.1()(64bit) libRDKitShapeHelpers.so.1()(64bit) libRDKitSimDivPickers.so.1()(64bit) libRDKitSmilesParse.so.1()(64bit) libRDKitStructChecker.so.1()(64bit) libRDKitSubgraphs.so.1()(64bit) libRDKitSubstructLibrary.so.1()(64bit) libRDKitSubstructMatch.so.1()(64bit) libRDKitTrajectory.so.1()(64bit) libRDKithc.so.1()(64bit) rdkit = 2019.03.3-13.fc34 rdkit(x86-64) = 2019.03.3-13.fc34 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: ld-linux-x86-64.so.2()(64bit) ld-linux-x86-64.so.2(GLIBC_2.3)(64bit) libRDKitAlignment.so.1()(64bit) libRDKitCatalogs.so.1()(64bit) libRDKitChemReactions.so.1()(64bit) libRDKitChemTransforms.so.1()(64bit) libRDKitDataStructs.so.1()(64bit) libRDKitDepictor.so.1()(64bit) libRDKitDescriptors.so.1()(64bit) libRDKitDistGeometry.so.1()(64bit) libRDKitEigenSolvers.so.1()(64bit) libRDKitFMCS.so.1()(64bit) libRDKitFileParsers.so.1()(64bit) libRDKitFilterCatalog.so.1()(64bit) libRDKitFingerprints.so.1()(64bit) libRDKitForceField.so.1()(64bit) libRDKitForceFieldHelpers.so.1()(64bit) libRDKitGraphMol.so.1()(64bit) libRDKitMolTransforms.so.1()(64bit) libRDKitPartialCharges.so.1()(64bit) libRDKitRDGeneral.so.1()(64bit) libRDKitRDGeometryLib.so.1()(64bit) libRDKitSmilesParse.so.1()(64bit) libRDKitSubgraphs.so.1()(64bit) libRDKitSubstructMatch.so.1()(64bit) libRDKithc.so.1()(64bit) libboost_iostreams.so.1.73.0()(64bit) libboost_python39.so.1.73.0()(64bit) libboost_serialization.so.1.73.0()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libcairo.so.2()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libinchi.so.1()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.29)(64bit) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.2.5)(64bit) libpython3.9.so.1.0()(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.11)(64bit) libstdc++.so.6(CXXABI_1.3.13)(64bit) libstdc++.so.6(CXXABI_1.3.2)(64bit) libstdc++.so.6(CXXABI_1.3.3)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.14)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.17)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.22)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) rtld(GNU_HASH) Processing files: rdkit-devel-2019.03.3-13.fc34.x86_64 Provides: cmake(rdkit) = 1.2019.03.3 rdkit-devel = 2019.03.3-13.fc34 rdkit-devel(x86-64) = 2019.03.3-13.fc34 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: cmake-filesystem(x86-64) libRDKitAlignment.so.1()(64bit) libRDKitCatalogs.so.1()(64bit) libRDKitChemReactions.so.1()(64bit) libRDKitChemTransforms.so.1()(64bit) libRDKitChemicalFeatures.so.1()(64bit) libRDKitDataStructs.so.1()(64bit) libRDKitDepictor.so.1()(64bit) libRDKitDescriptors.so.1()(64bit) libRDKitDistGeomHelpers.so.1()(64bit) libRDKitDistGeometry.so.1()(64bit) libRDKitEigenSolvers.so.1()(64bit) libRDKitFMCS.so.1()(64bit) libRDKitFileParsers.so.1()(64bit) libRDKitFilterCatalog.so.1()(64bit) libRDKitFingerprints.so.1()(64bit) libRDKitForceField.so.1()(64bit) libRDKitForceFieldHelpers.so.1()(64bit) libRDKitFragCatalog.so.1()(64bit) libRDKitGraphMol.so.1()(64bit) libRDKitInfoTheory.so.1()(64bit) libRDKitMMPA.so.1()(64bit) libRDKitMolAlign.so.1()(64bit) libRDKitMolCatalog.so.1()(64bit) libRDKitMolChemicalFeatures.so.1()(64bit) libRDKitMolDraw2D.so.1()(64bit) libRDKitMolHash.so.1()(64bit) libRDKitMolStandardize.so.1()(64bit) libRDKitMolTransforms.so.1()(64bit) libRDKitOptimizer.so.1()(64bit) libRDKitPartialCharges.so.1()(64bit) libRDKitRDBoost.so.1()(64bit) libRDKitRDGeneral.so.1()(64bit) libRDKitRDGeometryLib.so.1()(64bit) libRDKitRDInchiLib.so.1()(64bit) libRDKitRDStreams.so.1()(64bit) libRDKitRGroupDecomposition.so.1()(64bit) libRDKitReducedGraphs.so.1()(64bit) libRDKitSLNParse.so.1()(64bit) libRDKitShapeHelpers.so.1()(64bit) libRDKitSimDivPickers.so.1()(64bit) libRDKitSmilesParse.so.1()(64bit) libRDKitStructChecker.so.1()(64bit) libRDKitSubgraphs.so.1()(64bit) libRDKitSubstructLibrary.so.1()(64bit) libRDKitSubstructMatch.so.1()(64bit) libRDKitTrajectory.so.1()(64bit) libRDKithc.so.1()(64bit) Processing files: rdkit-doc-2019.03.3-13.fc34.noarch Processing files: python3-rdkit-2019.03.3-13.fc34.x86_64 Provides: python-rdkit = 2019.03.3-13.fc34 python3-rdkit = 2019.03.3-13.fc34 python3-rdkit(x86-64) = 2019.03.3-13.fc34 python3.9-rdkit = 2019.03.3-13.fc34 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: ld-linux-x86-64.so.2()(64bit) ld-linux-x86-64.so.2(GLIBC_2.3)(64bit) libRDKitAlignment.so.1()(64bit) libRDKitCatalogs.so.1()(64bit) libRDKitChemReactions.so.1()(64bit) libRDKitChemTransforms.so.1()(64bit) libRDKitChemicalFeatures.so.1()(64bit) libRDKitDataStructs.so.1()(64bit) libRDKitDepictor.so.1()(64bit) libRDKitDescriptors.so.1()(64bit) libRDKitDistGeomHelpers.so.1()(64bit) libRDKitDistGeometry.so.1()(64bit) libRDKitFMCS.so.1()(64bit) libRDKitFileParsers.so.1()(64bit) libRDKitFilterCatalog.so.1()(64bit) libRDKitFingerprints.so.1()(64bit) libRDKitForceField.so.1()(64bit) libRDKitForceFieldHelpers.so.1()(64bit) libRDKitFragCatalog.so.1()(64bit) libRDKitGraphMol.so.1()(64bit) libRDKitInfoTheory.so.1()(64bit) libRDKitMMPA.so.1()(64bit) libRDKitMolAlign.so.1()(64bit) libRDKitMolCatalog.so.1()(64bit) libRDKitMolChemicalFeatures.so.1()(64bit) libRDKitMolDraw2D.so.1()(64bit) libRDKitMolHash.so.1()(64bit) libRDKitMolStandardize.so.1()(64bit) libRDKitMolTransforms.so.1()(64bit) libRDKitPartialCharges.so.1()(64bit) libRDKitRDBoost.so.1()(64bit) libRDKitRDGeneral.so.1()(64bit) libRDKitRDGeometryLib.so.1()(64bit) libRDKitRDInchiLib.so.1()(64bit) libRDKitRGroupDecomposition.so.1()(64bit) libRDKitReducedGraphs.so.1()(64bit) libRDKitSLNParse.so.1()(64bit) libRDKitShapeHelpers.so.1()(64bit) libRDKitSimDivPickers.so.1()(64bit) libRDKitSmilesParse.so.1()(64bit) libRDKitStructChecker.so.1()(64bit) libRDKitSubgraphs.so.1()(64bit) libRDKitSubstructLibrary.so.1()(64bit) libRDKitSubstructMatch.so.1()(64bit) libRDKitTrajectory.so.1()(64bit) libRDKithc.so.1()(64bit) libboost_python39.so.1.73.0()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.4)(64bit) libcairo.so.2()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.29)(64bit) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.2.5)(64bit) libpython3.9.so.1.0()(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.1)(64bit) libstdc++.so.6(CXXABI_1.3.7)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.17)(64bit) libstdc++.so.6(GLIBCXX_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.22)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) python(abi) = 3.9 rtld(GNU_HASH) Obsoletes: python-rdkit < 2019.03.3-13.fc34 Processing files: rdkit-postgresql-2019.03.3-13.fc34.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.lilywq + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + DOCDIR=/builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/doc/rdkit-postgresql + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/doc/rdkit-postgresql + cp -pr python3/Code/PgSQL/rdkit/README /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64/usr/share/doc/rdkit-postgresql + RPM_EC=0 ++ jobs -p + exit 0 Provides: librdkit.so()(64bit) rdkit-postgresql = 2019.03.3-13.fc34 rdkit-postgresql(x86-64) = 2019.03.3-13.fc34 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libRDKitChemReactions.so.1()(64bit) libRDKitChemTransforms.so.1()(64bit) libRDKitDataStructs.so.1()(64bit) libRDKitDepictor.so.1()(64bit) libRDKitDescriptors.so.1()(64bit) libRDKitFMCS.so.1()(64bit) libRDKitFileParsers.so.1()(64bit) libRDKitFingerprints.so.1()(64bit) libRDKitGraphMol.so.1()(64bit) libRDKitMolDraw2D.so.1()(64bit) libRDKitMolHash.so.1()(64bit) libRDKitRDGeneral.so.1()(64bit) libRDKitRDInchiLib.so.1()(64bit) libRDKitSmilesParse.so.1()(64bit) libRDKitSubstructMatch.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.4)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgcc_s.so.1(GCC_3.4)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) rtld(GNU_HASH) Processing files: rdkit-debugsource-2019.03.3-13.fc34.x86_64 Provides: rdkit-debugsource = 2019.03.3-13.fc34 rdkit-debugsource(x86-64) = 2019.03.3-13.fc34 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: rdkit-debuginfo-2019.03.3-13.fc34.x86_64 Provides: debuginfo(build-id) = 0afa8cd1de0235014b58a7ff8592036b5bc4a7d3 debuginfo(build-id) = 0dd148e2da4b5924acdd87ce7c1a1913e3c0b8b4 debuginfo(build-id) = 15d788c10271002198fe120cd6d1547caac81e6f debuginfo(build-id) = 19644c7d0abd03aa0b2ad28ad6aa187bc7341d6c debuginfo(build-id) = 19da440d6b2089e0b83e5b9b28b81ccabd039431 debuginfo(build-id) = 1ae9e9c6c81c346436d1a9685b37fc1fe93421f5 debuginfo(build-id) = 1e6113f7e35ce75400d1a74e1b923841d7ab7307 debuginfo(build-id) = 1e83781db3cb5508a6d8d838b63b842843839d7f debuginfo(build-id) = 25ee4053c6aa7bb2539d1e5d7858517e810a5e1d debuginfo(build-id) = 2a199c46f36b9d8ff41f3921d6c1d501164505f8 debuginfo(build-id) = 2d130722484f4fa68db8cda4aa816713bc3deb69 debuginfo(build-id) = 3135302945afe7445f2e8c32b11eec77afb27067 debuginfo(build-id) = 36b0f740a7679ea73babf00e548f4c89f8eeebf4 debuginfo(build-id) = 3e80ca0ea1190a34e98b933314551f73183c6627 debuginfo(build-id) = 3fc86a396f7e64b5cb2a14c82405cad50a2d50c6 debuginfo(build-id) = 55376a4ea4219ac6995816be913a14a1ba645edc debuginfo(build-id) = 5a0d8fdaa28f1180df7aae68b5ce01caf3f7e38a debuginfo(build-id) = 617754910f69b63e640671cc224f0285ecae1cff debuginfo(build-id) = 623b3286a08e4a09e08ee3a13befbc094eb4302c debuginfo(build-id) = 6e14a9e70431afedf1e016a583942b714a960287 debuginfo(build-id) = 6ff38a58b8f27e7d824ce0d5a49b90329e3625ef debuginfo(build-id) = 73576f9f48f81a5bf42390f32930181467fc9f11 debuginfo(build-id) = 745b6542e1de20970f2b75c4474bd421f6e68b99 debuginfo(build-id) = 752a6147ed4ab32c5b5cd15620cebf65edd596b6 debuginfo(build-id) = 81576da2ebaa41af6161f9b19be516b447644337 debuginfo(build-id) = 8c30826c9567a3b06fa5dc35fd1650fefbf43a0c debuginfo(build-id) = 93c9a85cebd9d761ee25894607ced2dcddbd74a4 debuginfo(build-id) = 9ac36a5687b45944c52a0a0c8a4375671a916238 debuginfo(build-id) = 9df4d655d8c6280b0ab41ab73ee28e5a50e9069c debuginfo(build-id) = 9e12d2201ca5c16ba24e55fd044b4f4e8df3b96b debuginfo(build-id) = 9fdf2d1a75bbcaaa3f154d0d935facf4356a3923 debuginfo(build-id) = b618dfd41ad57aa265605f8c3338bbc6b2d4743c debuginfo(build-id) = bae29855f2005e1011235ffc925136ecd58ed68f debuginfo(build-id) = bbb3779a5b05c0038acd5aede1accbaa94965533 debuginfo(build-id) = bec53cefe130035e7a9a8e3fc888b86d13caeec1 debuginfo(build-id) = c051816bf52bc526817d8bb99fe04c7f92b8d3c0 debuginfo(build-id) = c15fca18d3eb6e7b11ff6b2086d0c3e2ec696084 debuginfo(build-id) = c32222e2852e649acf8765b2d3f0821b7c332202 debuginfo(build-id) = c4b63118f313d33244c49e46971d8d027c35df79 debuginfo(build-id) = c711518f1c1fa167f4596e68a0c7a9dd0213e91f debuginfo(build-id) = cad747b32139774798d5002f74bdf6422d00c488 debuginfo(build-id) = d265b195fd624e26060e7b2252f2ca3e08b4e82d debuginfo(build-id) = d3e421e201d07ca774ee7cf77b277073d687ab9f debuginfo(build-id) = e18bbe7c731a315e1bfa7afd07a9dc7a4696b5c7 debuginfo(build-id) = e6da6d0d62be695c533fde7d1788d706f083d9f4 debuginfo(build-id) = e8a4205353e237cf2cf878c10f0186c634919d1d debuginfo(build-id) = e8c2126c93174a41a17e4ada04f2448818cbb22c rdkit-debuginfo = 2019.03.3-13.fc34 rdkit-debuginfo(x86-64) = 2019.03.3-13.fc34 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: rdkit-debugsource(x86-64) = 2019.03.3-13.fc34 Processing files: python3-rdkit-debuginfo-2019.03.3-13.fc34.x86_64 Provides: debuginfo(build-id) = 0036bb54f0a91bdf17a94aa7dcdec620a0a489a3 debuginfo(build-id) = 01241206385be8562416a66b7853e62e50d352e7 debuginfo(build-id) = 0ba65827abe0a7724432a67de1bcbc08a19b24be debuginfo(build-id) = 0bc021bf148b863e16e6f0ab84ce8bafe892e4a2 debuginfo(build-id) = 19710f9109217d34b822b83314b3fdc6a9a974d6 debuginfo(build-id) = 1c349337b6d0ae85a113a13e662460c71cf359c5 debuginfo(build-id) = 25d7a4b418778e03dae38fa43473ac859570bb0d debuginfo(build-id) = 289ca6d88972ec5e9329b13e73eab963d79bf689 debuginfo(build-id) = 2f3995de58b1989b1eb9bfeb49f924c9e7bc5ae2 debuginfo(build-id) = 2f6605f0e7fce95d13b462a9fa8dadd1311049f8 debuginfo(build-id) = 32810e5e8399cc693c0f52a732540dccec6e60dd debuginfo(build-id) = 33143cf59b1004045c8186a79aa336e139f46e7f debuginfo(build-id) = 443707746cfdd9624cbc54cb91962e69ffc3937f debuginfo(build-id) = 5553abded0deeb82ba8e758d8852a449e07fac87 debuginfo(build-id) = 602342b4b560dbf6aafd890d4c8a02961ac092e9 debuginfo(build-id) = 60823477c0ecb04e7060bcc036835b063ea6e71b debuginfo(build-id) = 64d02bdee417140bae29feccbc53158574444fa0 debuginfo(build-id) = 67ceab94256bae319e90de019e926f7fedb64a23 debuginfo(build-id) = 67d360c165db6e59580787c6902212d8a621bb61 debuginfo(build-id) = 7ebb30d5004a486ca6891da2e4da0939a735f6f0 debuginfo(build-id) = 8203da5f248a3f221a40bd13d728595e14d07724 debuginfo(build-id) = 85fe9050f902aa81effa0ce28fa3c4c9b81cdfe7 debuginfo(build-id) = 87f217981ca817d1e9b14b26e6adbd23b9c702ec debuginfo(build-id) = 9a432924078f05f46be6fc927c28023453e644e6 debuginfo(build-id) = 9c48588fad427dd76d43245e166ce54e470a1841 debuginfo(build-id) = 9d86e771f752e9c607bc72b7b18c80723a2653b2 debuginfo(build-id) = 9e7ab3fac719be4c49eb01ad43803dfd4d5335f8 debuginfo(build-id) = b4b5ed9bf99a2748b53c1aafaa760101a8f0d855 debuginfo(build-id) = c1ccc68bf22f54efa3672e148645e526c14e007a debuginfo(build-id) = cab60255ab3e308d1313bf68cae69415d2a20c93 debuginfo(build-id) = db6b1138c2584b6f1cba4b2615be4ed1dcb83ba9 debuginfo(build-id) = db86044a65a283903499907e5da00a93b0c0f4a1 debuginfo(build-id) = dd7acaf674c2a30140dc1529bc9a8787469acc0a debuginfo(build-id) = de096e1975b97183746b23e75328d37e46d8fc51 debuginfo(build-id) = e1cec772508d3857f8d186e0d94cc67c645ea056 debuginfo(build-id) = e2d6fd6e77297d534a5f2ec0f1fbdf0e74cb176b debuginfo(build-id) = e4ddd8e1b64cade5d51a443f1aa3d86e34516873 debuginfo(build-id) = eae1ba41269c889e87ce1a7e3236a20a65c60b7e debuginfo(build-id) = f03b41f4b4448a76805ab9ecad5593bd0d4bf260 debuginfo(build-id) = f09b3eda911d6aeea3a0767aff84d8e5f60ac788 debuginfo(build-id) = f40bc2417e438dde2e55ca53f6b2763ec9979afd debuginfo(build-id) = f51d5bbbc4b25b57b30446a7f05e556c9bdbde5a python-rdkit-debuginfo = 2019.03.3-13.fc34 python3-rdkit-debuginfo = 2019.03.3-13.fc34 python3-rdkit-debuginfo(x86-64) = 2019.03.3-13.fc34 python3.9-rdkit-debuginfo = 2019.03.3-13.fc34 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: rdkit-debugsource(x86-64) = 2019.03.3-13.fc34 Processing files: rdkit-postgresql-debuginfo-2019.03.3-13.fc34.x86_64 Provides: debuginfo(build-id) = d24431d3eb9ff4cbe2a661eb16f37dec79116e73 rdkit-postgresql-debuginfo = 2019.03.3-13.fc34 rdkit-postgresql-debuginfo(x86-64) = 2019.03.3-13.fc34 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: rdkit-debugsource(x86-64) = 2019.03.3-13.fc34 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64 Wrote: /builddir/build/RPMS/rdkit-debuginfo-2019.03.3-13.fc34.x86_64.rpm Wrote: /builddir/build/RPMS/python3-rdkit-2019.03.3-13.fc34.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-2019.03.3-13.fc34.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-debugsource-2019.03.3-13.fc34.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-postgresql-debuginfo-2019.03.3-13.fc34.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-devel-2019.03.3-13.fc34.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-postgresql-2019.03.3-13.fc34.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-doc-2019.03.3-13.fc34.noarch.rpm Wrote: /builddir/build/RPMS/python3-rdkit-debuginfo-2019.03.3-13.fc34.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.D1CGhO + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + /usr/bin/rm -rf /builddir/build/BUILDROOT/rdkit-2019.03.3-13.fc34.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild rdkit-2019.03.3-13.fc34.src.rpm Finish: build phase for rdkit-2019.03.3-13.fc34.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-rawhide-x86_64-1611737408.650207/root/var/log/dnf.rpm.log /var/lib/mock/fedora-rawhide-x86_64-1611737408.650207/root/var/log/dnf.librepo.log /var/lib/mock/fedora-rawhide-x86_64-1611737408.650207/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/rdkit-2019.03.3-13.fc34.src.rpm) Config(child) 74 minutes 25 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run INFO: unmounting tmpfs.