Warning: Permanently added '34.204.80.212' (ECDSA) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 1417245 --chroot fedora-32-x86_64 --detached Version: 0.38 Task: {'build_id': 1417245, 'buildroot_pkgs': [], 'chroot': 'fedora-32-x86_64', 'enable_net': False, 'fetch_sources_only': True, 'git_hash': '22d90f10b5ccf3e3d4de3fdc8f3fae226e8c0617', 'git_repo': 'jvanek/java11/rdkit', 'memory_reqs': 2048, 'package_name': 'rdkit', 'package_version': '2019.03.3-8.fc31', 'project_dirname': 'java11', 'project_name': 'java11', 'project_owner': 'jvanek', 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/jvanek/java11/fedora-32-x86_64/', 'id': 'copr_base', 'name': 'Copr repository'}], 'sandbox': 'jvanek/java11--https://src.fedoraproject.org/user/jwakely', 'source_json': {'clone_url': 'https://copr-dist-git.fedorainfracloud.org/git/jvanek/java11/rdkit.git', 'committish': '22d90f10b5ccf3e3d4de3fdc8f3fae226e8c0617'}, 'source_type': 8, 'submitter': 'https://src.fedoraproject.org/user/jwakely', 'task_id': '1417245-fedora-32-x86_64', 'timeout': 86400, 'use_bootstrap_container': False, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/jvanek/java11/rdkit.git /tmp/copr-rpmbuild-d92fqb_o/obtain-sources/rdkit --depth 500 --no-single-branch cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/jvanek/java11/rdkit.git', '/tmp/copr-rpmbuild-d92fqb_o/obtain-sources/rdkit', '--depth', '500', '--no-single-branch'] cwd: . rc: 0 stdout: stderr: Cloning into '/tmp/copr-rpmbuild-d92fqb_o/obtain-sources/rdkit'... Running: git checkout 22d90f10b5ccf3e3d4de3fdc8f3fae226e8c0617 cmd: ['git', 'checkout', '22d90f10b5ccf3e3d4de3fdc8f3fae226e8c0617'] cwd: /tmp/copr-rpmbuild-d92fqb_o/obtain-sources/rdkit rc: 0 stdout: stderr: Note: switching to '22d90f10b5ccf3e3d4de3fdc8f3fae226e8c0617'. 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 22d90f1 automatic import of rdkit Running: cp -r . /tmp/copr-rpmbuild-d92fqb_o cmd: ['cp', '-r', '.', '/tmp/copr-rpmbuild-d92fqb_o'] cwd: /tmp/copr-rpmbuild-d92fqb_o/obtain-sources/rdkit rc: 0 stdout: stderr: Generated rpkg config: [rpkg] preprocess_spec = True # auto-packing is deprecated: auto_pack = True [git] lookaside = https://copr-dist-git.fedorainfracloud.org/repo/pkgs/%(ns2)s/%(ns1)s/%(name)s/%(filename)s/%(hashtype)s/%(hash)s/%(filename)s anongiturl = https://copr-dist-git.fedorainfracloud.org/git/%(module)s Writing config into /tmp/copr-rpmbuild-d92fqb_o/obtain-sources/.config/rpkg.conf Running: rpkg -C /tmp/copr-rpmbuild-d92fqb_o/obtain-sources/.config/rpkg.conf sources --outdir /tmp/copr-rpmbuild-d92fqb_o /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated cmd: ['rpkg', '-C', '/tmp/copr-rpmbuild-d92fqb_o/obtain-sources/.config/rpkg.conf', 'sources', '--outdir', '/tmp/copr-rpmbuild-d92fqb_o'] cwd: /tmp/copr-rpmbuild-d92fqb_o/obtain-sources/rdkit rc: 0 stdout: Downloading Release_2019_03_3.tar.gz from lookaside cache at copr-dist-git.fedorainfracloud.org stderr: Running (timeout=86400): unbuffer mock --buildsrpm --spec /tmp/copr-rpmbuild-d92fqb_o/rdkit.spec --sources /tmp/copr-rpmbuild-d92fqb_o --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1590825942.548265 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 2.2 starting (python version = 3.7.6)... 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-d92fqb_o/rdkit.spec) Config(fedora-32-x86_64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-32-x86_64-1590825942.548265/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: 2.2 INFO: Mock Version: 2.2 Start: dnf install No matches found for the following disable plugin patterns: local, spacewalk Copr repository 10 MB/s | 2.3 MB 00:00 fedora 24 MB/s | 70 MB 00:02 updates 19 MB/s | 15 MB 00:00 Dependencies resolved. ====================================================================================== Package Arch Version Repo Size ====================================================================================== Installing group/module packages: bash  x86_64 5.0.11-2.fc32 fedora 1.6 M bzip2  x86_64 1.0.8-2.fc32 fedora 52 k coreutils  x86_64 8.32-4.fc32.1 updates 1.2 M cpio  x86_64 2.13-4.fc32 fedora 283 k diffutils  x86_64 3.7-4.fc32 fedora 397 k fedora-release-common  noarch 32-2 updates 21 k findutils  x86_64 1:4.7.0-4.fc32 updates 552 k gawk  x86_64 5.0.1-7.fc32 fedora 1.2 M glibc-minimal-langpack  x86_64 2.31-2.fc32 fedora 56 k grep  x86_64 3.3-4.fc32 fedora 250 k gzip  x86_64 1.10-2.fc32 fedora 155 k info  x86_64 6.7-6.fc32 fedora 228 k make  x86_64 1:4.2.1-16.fc32 fedora 494 k patch  x86_64 2.7.6-12.fc32 fedora 135 k redhat-rpm-config  noarch 150-1.fc32 fedora 63 k rpm-build  x86_64 4.15.1-3.fc32.1 updates 115 k sed  x86_64 4.5-5.fc32 fedora 291 k shadow-utils  x86_64 2:4.8.1-2.fc32 fedora 1.2 M tar  x86_64 2:1.32-4.fc32 fedora 887 k unzip  x86_64 6.0-47.fc32 fedora 179 k util-linux  x86_64 2.35.2-1.fc32 updates 2.7 M which  x86_64 2.21-19.fc32 fedora 42 k xz  x86_64 5.2.5-1.fc32 fedora 187 k Installing dependencies: alternatives  x86_64 1.11-6.fc32 fedora 35 k audit-libs  x86_64 3.0-0.19.20191104git1c2f876.fc32 fedora 115 k basesystem  noarch 11-9.fc32 fedora 6.8 k binutils  x86_64 2.34-3.fc32 updates 5.4 M binutils-gold  x86_64 2.34-3.fc32 updates 856 k bzip2-libs  x86_64 1.0.8-2.fc32 fedora 40 k ca-certificates  noarch 2020.2.40-3.fc32 fedora 358 k coreutils-common  x86_64 8.32-4.fc32.1 updates 2.0 M cracklib  x86_64 2.9.6-22.fc32 fedora 83 k crypto-policies  noarch 20191128-5.gitcd267a5.fc32 fedora 56 k curl  x86_64 7.69.1-3.fc32 updates 289 k cyrus-sasl-lib  x86_64 2.1.27-4.fc32 fedora 100 k dwz  x86_64 0.13-2.fc32 fedora 109 k efi-srpm-macros  noarch 4-4.fc32 fedora 22 k elfutils  x86_64 0.179-2.fc32 updates 532 k elfutils-default-yama-scope  noarch 0.179-2.fc32 updates 18 k elfutils-libelf  x86_64 0.179-2.fc32 updates 191 k elfutils-libs  x86_64 0.179-2.fc32 updates 266 k expat  x86_64 2.2.8-2.fc32 fedora 103 k fedora-gpg-keys  noarch 32-2 updates 103 k fedora-release  noarch 32-2 updates 12 k fedora-repos  noarch 32-2 updates 10 k file  x86_64 5.38-2.fc32 fedora 52 k file-libs  x86_64 5.38-2.fc32 fedora 568 k filesystem  x86_64 3.14-2.fc32 fedora 1.1 M fonts-srpm-macros  noarch 2.0.3-1.fc32 fedora 26 k fpc-srpm-macros  noarch 1.3-1.fc32 fedora 7.6 k gc  x86_64 8.0.4-3.fc32 fedora 113 k gdb-minimal  x86_64 9.1-5.fc32 updates 3.5 M ghc-srpm-macros  noarch 1.5.0-2.fc32 fedora 7.7 k glibc  x86_64 2.31-2.fc32 fedora 3.5 M glibc-common  x86_64 2.31-2.fc32 fedora 1.7 M gmp  x86_64 1:6.1.2-13.fc32 fedora 309 k gnat-srpm-macros  noarch 4-11.fc32 fedora 8.2 k go-srpm-macros  noarch 3.0.8-5.fc32 fedora 25 k guile22  x86_64 2.2.6-4.fc32 fedora 6.6 M keyutils-libs  x86_64 1.6-4.fc32 fedora 31 k krb5-libs  x86_64 1.18-1.fc32 fedora 756 k libacl  x86_64 2.2.53-5.fc32 fedora 25 k libarchive  x86_64 3.4.3-1.fc32 updates 389 k libattr  x86_64 2.4.48-8.fc32 fedora 18 k libblkid  x86_64 2.35.2-1.fc32 updates 152 k libbrotli  x86_64 1.0.7-10.fc32 fedora 324 k libcap  x86_64 2.26-7.fc32 fedora 52 k libcap-ng  x86_64 0.7.10-2.fc32 fedora 28 k libcom_err  x86_64 1.45.5-3.fc32 fedora 28 k libcurl  x86_64 7.69.1-3.fc32 updates 271 k libdb  x86_64 5.3.28-40.fc32 fedora 761 k libdb-utils  x86_64 5.3.28-40.fc32 fedora 142 k libfdisk  x86_64 2.35.2-1.fc32 updates 204 k libffi  x86_64 3.1-24.fc32 fedora 33 k libgcc  x86_64 10.1.1-1.fc32 updates 91 k libgcrypt  x86_64 1.8.5-3.fc32 fedora 469 k libgomp  x86_64 10.1.1-1.fc32 updates 251 k libgpg-error  x86_64 1.36-3.fc32 fedora 201 k libidn2  x86_64 2.3.0-2.fc32 fedora 104 k libmetalink  x86_64 0.1.3-10.fc32 fedora 31 k libmount  x86_64 2.35.2-1.fc32 updates 179 k libnghttp2  x86_64 1.40.0-2.fc32 fedora 79 k libnsl2  x86_64 1.2.0-6.20180605git4a062cf.fc32 fedora 59 k libpkgconf  x86_64 1.6.3-3.fc32 fedora 35 k libpsl  x86_64 0.21.0-4.fc32 fedora 61 k libpwquality  x86_64 1.4.2-2.fc32 fedora 101 k libselinux  x86_64 3.0-3.fc32 fedora 86 k libsemanage  x86_64 3.0-3.fc32 fedora 123 k libsepol  x86_64 3.0-3.fc32 fedora 299 k libsigsegv  x86_64 2.11-10.fc32 fedora 26 k libsmartcols  x86_64 2.35.2-1.fc32 updates 120 k libssh  x86_64 0.9.4-2.fc32 updates 215 k libssh-config  noarch 0.9.4-2.fc32 updates 11 k libstdc++  x86_64 10.1.1-1.fc32 updates 617 k libtasn1  x86_64 4.16.0-1.fc32 fedora 73 k libtirpc  x86_64 1.2.6-0.fc32 updates 97 k libtool-ltdl  x86_64 2.4.6-33.fc32 fedora 37 k libunistring  x86_64 0.9.10-7.fc32 fedora 512 k libutempter  x86_64 1.1.6-18.fc32 fedora 26 k libuuid  x86_64 2.35.2-1.fc32 updates 28 k libverto  x86_64 0.3.0-9.fc32 fedora 22 k libxcrypt  x86_64 4.4.16-3.fc32 updates 127 k libxml2  x86_64 2.9.10-3.fc32 fedora 703 k libzstd  x86_64 1.4.5-3.fc32 updates 338 k lua-libs  x86_64 5.3.5-7.fc32 fedora 119 k lz4-libs  x86_64 1.9.1-2.fc32 fedora 65 k mpfr  x86_64 4.0.2-4.fc32 updates 256 k ncurses  x86_64 6.1-15.20191109.fc32 fedora 399 k ncurses-base  noarch 6.1-15.20191109.fc32 fedora 59 k ncurses-libs  x86_64 6.1-15.20191109.fc32 fedora 327 k nim-srpm-macros  noarch 3-2.fc32 fedora 8.3 k ocaml-srpm-macros  noarch 6-2.fc32 fedora 7.7 k openblas-srpm-macros  noarch 2-7.fc32 fedora 7.2 k openldap  x86_64 2.4.47-4.fc32 fedora 305 k openssl-libs  x86_64 1:1.1.1g-1.fc32 updates 1.4 M p11-kit  x86_64 0.23.20-1.fc32 fedora 347 k p11-kit-trust  x86_64 0.23.20-1.fc32 fedora 142 k pam  x86_64 1.3.1-24.fc32 fedora 666 k pcre  x86_64 8.44-1.fc32 fedora 198 k pcre2  x86_64 10.35-1.fc32 updates 233 k pcre2-syntax  noarch 10.35-1.fc32 updates 142 k perl-srpm-macros  noarch 1-34.fc32 fedora 8.3 k pkgconf  x86_64 1.6.3-3.fc32 fedora 41 k pkgconf-m4  noarch 1.6.3-3.fc32 fedora 14 k pkgconf-pkg-config  x86_64 1.6.3-3.fc32 fedora 9.7 k popt  x86_64 1.16-19.fc32 fedora 58 k publicsuffix-list-dafsa  noarch 20190417-3.fc32 fedora 56 k python-srpm-macros  noarch 3-56.fc32 updates 17 k qt5-srpm-macros  noarch 5.13.2-2.fc32 fedora 8.5 k readline  x86_64 8.0-4.fc32 fedora 207 k rpm  x86_64 4.15.1-3.fc32.1 updates 498 k rpm-build-libs  x86_64 4.15.1-3.fc32.1 updates 97 k rpm-libs  x86_64 4.15.1-3.fc32.1 updates 302 k rust-srpm-macros  noarch 14-1.fc32 updates 9.6 k setup  noarch 2.13.6-2.fc32 fedora 142 k systemd-libs  x86_64 245.4-1.fc32 fedora 558 k tzdata  noarch 2020a-1.fc32 updates 430 k xxhash-libs  x86_64 0.7.3-1.fc32 fedora 29 k xz-libs  x86_64 5.2.5-1.fc32 fedora 90 k zip  x86_64 3.0-26.fc32 fedora 260 k zlib  x86_64 1.2.11-21.fc32 fedora 93 k zstd  x86_64 1.4.5-3.fc32 updates 601 k Installing Groups: Buildsystem building group Transaction Summary ====================================================================================== Install 142 Packages Total download size: 56 M Installed size: 229 M Downloading Packages: (1/142): alternatives-1.11-6.fc32.x86_64.rpm 1.0 MB/s | 35 kB 00:00 (2/142): basesystem-11-9.fc32.noarch.rpm 188 kB/s | 6.8 kB 00:00 (3/142): audit-libs-3.0-0.19.20191104git1c2f876 2.9 MB/s | 115 kB 00:00 (4/142): bzip2-1.0.8-2.fc32.x86_64.rpm 4.7 MB/s | 52 kB 00:00 (5/142): bash-5.0.11-2.fc32.x86_64.rpm 49 MB/s | 1.6 MB 00:00 (6/142): bzip2-libs-1.0.8-2.fc32.x86_64.rpm 1.2 MB/s | 40 kB 00:00 (7/142): ca-certificates-2020.2.40-3.fc32.noarc 14 MB/s | 358 kB 00:00 (8/142): cpio-2.13-4.fc32.x86_64.rpm 25 MB/s | 283 kB 00:00 (9/142): crypto-policies-20191128-5.gitcd267a5. 10 MB/s | 56 kB 00:00 (10/142): cracklib-2.9.6-22.fc32.x86_64.rpm 11 MB/s | 83 kB 00:00 (11/142): cyrus-sasl-lib-2.1.27-4.fc32.x86_64.r 16 MB/s | 100 kB 00:00 (12/142): diffutils-3.7-4.fc32.x86_64.rpm 37 MB/s | 397 kB 00:00 (13/142): dwz-0.13-2.fc32.x86_64.rpm 12 MB/s | 109 kB 00:00 (14/142): efi-srpm-macros-4-4.fc32.noarch.rpm 5.6 MB/s | 22 kB 00:00 (15/142): expat-2.2.8-2.fc32.x86_64.rpm 19 MB/s | 103 kB 00:00 (16/142): file-5.38-2.fc32.x86_64.rpm 9.3 MB/s | 52 kB 00:00 (17/142): file-libs-5.38-2.fc32.x86_64.rpm 34 MB/s | 568 kB 00:00 (18/142): filesystem-3.14-2.fc32.x86_64.rpm 41 MB/s | 1.1 MB 00:00 (19/142): fonts-srpm-macros-2.0.3-1.fc32.noarch 1.0 MB/s | 26 kB 00:00 (20/142): fpc-srpm-macros-1.3-1.fc32.noarch.rpm 794 kB/s | 7.6 kB 00:00 (21/142): gawk-5.0.1-7.fc32.x86_64.rpm 24 MB/s | 1.2 MB 00:00 (22/142): gc-8.0.4-3.fc32.x86_64.rpm 1.9 MB/s | 113 kB 00:00 (23/142): glibc-2.31-2.fc32.x86_64.rpm 19 MB/s | 3.5 MB 00:00 (24/142): glibc-common-2.31-2.fc32.x86_64.rpm 6.5 MB/s | 1.7 MB 00:00 (25/142): ghc-srpm-macros-1.5.0-2.fc32.noarch.r 28 kB/s | 7.7 kB 00:00 (26/142): glibc-minimal-langpack-2.31-2.fc32.x8 1.9 MB/s | 56 kB 00:00 (27/142): gmp-6.1.2-13.fc32.x86_64.rpm 4.9 MB/s | 309 kB 00:00 (28/142): gnat-srpm-macros-4-11.fc32.noarch.rpm 159 kB/s | 8.2 kB 00:00 (29/142): go-srpm-macros-3.0.8-5.fc32.noarch.rp 2.6 MB/s | 25 kB 00:00 (30/142): grep-3.3-4.fc32.x86_64.rpm 12 MB/s | 250 kB 00:00 (31/142): guile22-2.2.6-4.fc32.x86_64.rpm 41 MB/s | 6.6 MB 00:00 (32/142): gzip-1.10-2.fc32.x86_64.rpm 1.1 MB/s | 155 kB 00:00 (33/142): info-6.7-6.fc32.x86_64.rpm 1.5 MB/s | 228 kB 00:00 (34/142): keyutils-libs-1.6-4.fc32.x86_64.rpm 1.7 MB/s | 31 kB 00:00 (35/142): libacl-2.2.53-5.fc32.x86_64.rpm 9.7 MB/s | 25 kB 00:00 (36/142): krb5-libs-1.18-1.fc32.x86_64.rpm 33 MB/s | 756 kB 00:00 (37/142): libattr-2.4.48-8.fc32.x86_64.rpm 811 kB/s | 18 kB 00:00 (38/142): libbrotli-1.0.7-10.fc32.x86_64.rpm 16 MB/s | 324 kB 00:00 (39/142): libcap-2.26-7.fc32.x86_64.rpm 16 MB/s | 52 kB 00:00 (40/142): libcap-ng-0.7.10-2.fc32.x86_64.rpm 6.3 MB/s | 28 kB 00:00 (41/142): libcom_err-1.45.5-3.fc32.x86_64.rpm 7.7 MB/s | 28 kB 00:00 (42/142): libdb-5.3.28-40.fc32.x86_64.rpm 41 MB/s | 761 kB 00:00 (43/142): libdb-utils-5.3.28-40.fc32.x86_64.rpm 7.4 MB/s | 142 kB 00:00 (44/142): libffi-3.1-24.fc32.x86_64.rpm 2.1 MB/s | 33 kB 00:00 (45/142): libgcrypt-1.8.5-3.fc32.x86_64.rpm 72 MB/s | 469 kB 00:00 (46/142): libgpg-error-1.36-3.fc32.x86_64.rpm 11 MB/s | 201 kB 00:00 (47/142): libidn2-2.3.0-2.fc32.x86_64.rpm 5.5 MB/s | 104 kB 00:00 (48/142): libmetalink-0.1.3-10.fc32.x86_64.rpm 2.1 MB/s | 31 kB 00:00 (49/142): libnsl2-1.2.0-6.20180605git4a062cf.fc 19 MB/s | 59 kB 00:00 (50/142): libpkgconf-1.6.3-3.fc32.x86_64.rpm 9.6 MB/s | 35 kB 00:00 (51/142): libpsl-0.21.0-4.fc32.x86_64.rpm 22 MB/s | 61 kB 00:00 (52/142): libpwquality-1.4.2-2.fc32.x86_64.rpm 31 MB/s | 101 kB 00:00 (53/142): libnghttp2-1.40.0-2.fc32.x86_64.rpm 7.6 MB/s | 79 kB 00:00 (54/142): libselinux-3.0-3.fc32.x86_64.rpm 18 MB/s | 86 kB 00:00 (55/142): libsemanage-3.0-3.fc32.x86_64.rpm 26 MB/s | 123 kB 00:00 (56/142): libsepol-3.0-3.fc32.x86_64.rpm 63 MB/s | 299 kB 00:00 (57/142): libsigsegv-2.11-10.fc32.x86_64.rpm 4.9 MB/s | 26 kB 00:00 (58/142): libtasn1-4.16.0-1.fc32.x86_64.rpm 12 MB/s | 73 kB 00:00 (59/142): libtool-ltdl-2.4.6-33.fc32.x86_64.rpm 12 MB/s | 37 kB 00:00 (60/142): libunistring-0.9.10-7.fc32.x86_64.rpm 65 MB/s | 512 kB 00:00 (61/142): libutempter-1.1.6-18.fc32.x86_64.rpm 1.6 MB/s | 26 kB 00:00 (62/142): libverto-0.3.0-9.fc32.x86_64.rpm 1.7 MB/s | 22 kB 00:00 (63/142): libxml2-2.9.10-3.fc32.x86_64.rpm 80 MB/s | 703 kB 00:00 (64/142): lua-libs-5.3.5-7.fc32.x86_64.rpm 12 MB/s | 119 kB 00:00 (65/142): lz4-libs-1.9.1-2.fc32.x86_64.rpm 6.2 MB/s | 65 kB 00:00 (66/142): make-4.2.1-16.fc32.x86_64.rpm 60 MB/s | 494 kB 00:00 (67/142): ncurses-6.1-15.20191109.fc32.x86_64.r 39 MB/s | 399 kB 00:00 (68/142): ncurses-base-6.1-15.20191109.fc32.noa 5.8 MB/s | 59 kB 00:00 (69/142): ncurses-libs-6.1-15.20191109.fc32.x86 64 MB/s | 327 kB 00:00 (70/142): ocaml-srpm-macros-6-2.fc32.noarch.rpm 648 kB/s | 7.7 kB 00:00 (71/142): nim-srpm-macros-3-2.fc32.noarch.rpm 636 kB/s | 8.3 kB 00:00 (72/142): openblas-srpm-macros-2-7.fc32.noarch. 853 kB/s | 7.2 kB 00:00 (73/142): openldap-2.4.47-4.fc32.x86_64.rpm 36 MB/s | 305 kB 00:00 (74/142): p11-kit-0.23.20-1.fc32.x86_64.rpm 33 MB/s | 347 kB 00:00 (75/142): p11-kit-trust-0.23.20-1.fc32.x86_64.r 12 MB/s | 142 kB 00:00 (76/142): pam-1.3.1-24.fc32.x86_64.rpm 33 MB/s | 666 kB 00:00 (77/142): patch-2.7.6-12.fc32.x86_64.rpm 8.3 MB/s | 135 kB 00:00 (78/142): pcre-8.44-1.fc32.x86_64.rpm 11 MB/s | 198 kB 00:00 (79/142): perl-srpm-macros-1-34.fc32.noarch.rpm 2.3 MB/s | 8.3 kB 00:00 (80/142): pkgconf-1.6.3-3.fc32.x86_64.rpm 14 MB/s | 41 kB 00:00 (81/142): pkgconf-m4-1.6.3-3.fc32.noarch.rpm 4.1 MB/s | 14 kB 00:00 (82/142): pkgconf-pkg-config-1.6.3-3.fc32.x86_6 2.5 MB/s | 9.7 kB 00:00 (83/142): popt-1.16-19.fc32.x86_64.rpm 21 MB/s | 58 kB 00:00 (84/142): publicsuffix-list-dafsa-20190417-3.fc 13 MB/s | 56 kB 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-------------------------------------------------------------------------------- Total 36 MB/s | 56 MB 00:01 warning: Generating 18 missing index(es), please wait... warning: /var/lib/mock/fedora-32-x86_64-1590825942.548265/root/var/cache/dnf/fedora-558931b5e76b51a7/packages/alternatives-1.11-6.fc32.x86_64.rpm: Header V3 RSA/SHA256 Signature, key ID 12c944d0: NOKEY fedora 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x12C944D0: Userid : "Fedora (32) " Fingerprint: 97A1 AE57 C3A2 372C CA3A 4ABA 6C13 026D 12C9 44D0 From : /usr/share/distribution-gpg-keys/fedora/RPM-GPG-KEY-fedora-32-primary Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.14-2.fc32.x86_64 1/1 Preparing : 1/1 Installing : libgcc-10.1.1-1.fc32.x86_64 1/142 Running scriptlet: libgcc-10.1.1-1.fc32.x86_64 1/142 Installing : tzdata-2020a-1.fc32.noarch 2/142 Installing : rust-srpm-macros-14-1.fc32.noarch 3/142 Installing : pcre2-syntax-10.35-1.fc32.noarch 4/142 Installing : libssh-config-0.9.4-2.fc32.noarch 5/142 Installing : fedora-gpg-keys-32-2.noarch 6/142 Installing : fedora-release-32-2.noarch 7/142 Installing : fedora-repos-32-2.noarch 8/142 Installing : fedora-release-common-32-2.noarch 9/142 Installing : setup-2.13.6-2.fc32.noarch 10/142 warning: /etc/hosts created as /etc/hosts.rpmnew Running scriptlet: setup-2.13.6-2.fc32.noarch 10/142 Installing : filesystem-3.14-2.fc32.x86_64 11/142 Installing : basesystem-11-9.fc32.noarch 12/142 Installing : coreutils-common-8.32-4.fc32.1.x86_64 13/142 Installing : qt5-srpm-macros-5.13.2-2.fc32.noarch 14/142 Installing : 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135/142 Installing : python-srpm-macros-3-56.fc32.noarch 136/142 Installing : redhat-rpm-config-150-1.fc32.noarch 137/142 Installing : rpm-build-4.15.1-3.fc32.1.x86_64 138/142 Installing : util-linux-2.35.2-1.fc32.x86_64 139/142 Running scriptlet: util-linux-2.35.2-1.fc32.x86_64 139/142 Installing : make-1:4.2.1-16.fc32.x86_64 140/142 Installing : info-6.7-6.fc32.x86_64 141/142 Installing : which-2.21-19.fc32.x86_64 142/142 Running scriptlet: filesystem-3.14-2.fc32.x86_64 142/142 Running scriptlet: which-2.21-19.fc32.x86_64 142/142 Verifying : alternatives-1.11-6.fc32.x86_64 1/142 Verifying : audit-libs-3.0-0.19.20191104git1c2f876.fc32.x86_ 2/142 Verifying : basesystem-11-9.fc32.noarch 3/142 Verifying : bash-5.0.11-2.fc32.x86_64 4/142 Verifying : bzip2-1.0.8-2.fc32.x86_64 5/142 Verifying : bzip2-libs-1.0.8-2.fc32.x86_64 6/142 Verifying : ca-certificates-2020.2.40-3.fc32.noarch 7/142 Verifying : cpio-2.13-4.fc32.x86_64 8/142 Verifying : cracklib-2.9.6-22.fc32.x86_64 9/142 Verifying : crypto-policies-20191128-5.gitcd267a5.fc32.noarc 10/142 Verifying : cyrus-sasl-lib-2.1.27-4.fc32.x86_64 11/142 Verifying : diffutils-3.7-4.fc32.x86_64 12/142 Verifying : dwz-0.13-2.fc32.x86_64 13/142 Verifying : efi-srpm-macros-4-4.fc32.noarch 14/142 Verifying : expat-2.2.8-2.fc32.x86_64 15/142 Verifying : file-5.38-2.fc32.x86_64 16/142 Verifying : file-libs-5.38-2.fc32.x86_64 17/142 Verifying : filesystem-3.14-2.fc32.x86_64 18/142 Verifying : fonts-srpm-macros-2.0.3-1.fc32.noarch 19/142 Verifying : fpc-srpm-macros-1.3-1.fc32.noarch 20/142 Verifying : gawk-5.0.1-7.fc32.x86_64 21/142 Verifying : gc-8.0.4-3.fc32.x86_64 22/142 Verifying : ghc-srpm-macros-1.5.0-2.fc32.noarch 23/142 Verifying : glibc-2.31-2.fc32.x86_64 24/142 Verifying : glibc-common-2.31-2.fc32.x86_64 25/142 Verifying : glibc-minimal-langpack-2.31-2.fc32.x86_64 26/142 Verifying : gmp-1:6.1.2-13.fc32.x86_64 27/142 Verifying : gnat-srpm-macros-4-11.fc32.noarch 28/142 Verifying : go-srpm-macros-3.0.8-5.fc32.noarch 29/142 Verifying : grep-3.3-4.fc32.x86_64 30/142 Verifying : guile22-2.2.6-4.fc32.x86_64 31/142 Verifying : gzip-1.10-2.fc32.x86_64 32/142 Verifying : info-6.7-6.fc32.x86_64 33/142 Verifying : keyutils-libs-1.6-4.fc32.x86_64 34/142 Verifying : krb5-libs-1.18-1.fc32.x86_64 35/142 Verifying : libacl-2.2.53-5.fc32.x86_64 36/142 Verifying : libattr-2.4.48-8.fc32.x86_64 37/142 Verifying : libbrotli-1.0.7-10.fc32.x86_64 38/142 Verifying : libcap-2.26-7.fc32.x86_64 39/142 Verifying : libcap-ng-0.7.10-2.fc32.x86_64 40/142 Verifying : libcom_err-1.45.5-3.fc32.x86_64 41/142 Verifying : libdb-5.3.28-40.fc32.x86_64 42/142 Verifying : libdb-utils-5.3.28-40.fc32.x86_64 43/142 Verifying : libffi-3.1-24.fc32.x86_64 44/142 Verifying : libgcrypt-1.8.5-3.fc32.x86_64 45/142 Verifying : libgpg-error-1.36-3.fc32.x86_64 46/142 Verifying : libidn2-2.3.0-2.fc32.x86_64 47/142 Verifying : libmetalink-0.1.3-10.fc32.x86_64 48/142 Verifying : libnghttp2-1.40.0-2.fc32.x86_64 49/142 Verifying : libnsl2-1.2.0-6.20180605git4a062cf.fc32.x86_64 50/142 Verifying : libpkgconf-1.6.3-3.fc32.x86_64 51/142 Verifying : libpsl-0.21.0-4.fc32.x86_64 52/142 Verifying : libpwquality-1.4.2-2.fc32.x86_64 53/142 Verifying : libselinux-3.0-3.fc32.x86_64 54/142 Verifying : libsemanage-3.0-3.fc32.x86_64 55/142 Verifying : libsepol-3.0-3.fc32.x86_64 56/142 Verifying : libsigsegv-2.11-10.fc32.x86_64 57/142 Verifying : libtasn1-4.16.0-1.fc32.x86_64 58/142 Verifying : libtool-ltdl-2.4.6-33.fc32.x86_64 59/142 Verifying : libunistring-0.9.10-7.fc32.x86_64 60/142 Verifying : libutempter-1.1.6-18.fc32.x86_64 61/142 Verifying : libverto-0.3.0-9.fc32.x86_64 62/142 Verifying : libxml2-2.9.10-3.fc32.x86_64 63/142 Verifying : lua-libs-5.3.5-7.fc32.x86_64 64/142 Verifying : lz4-libs-1.9.1-2.fc32.x86_64 65/142 Verifying : make-1:4.2.1-16.fc32.x86_64 66/142 Verifying : ncurses-6.1-15.20191109.fc32.x86_64 67/142 Verifying : ncurses-base-6.1-15.20191109.fc32.noarch 68/142 Verifying : ncurses-libs-6.1-15.20191109.fc32.x86_64 69/142 Verifying : nim-srpm-macros-3-2.fc32.noarch 70/142 Verifying : ocaml-srpm-macros-6-2.fc32.noarch 71/142 Verifying : openblas-srpm-macros-2-7.fc32.noarch 72/142 Verifying : openldap-2.4.47-4.fc32.x86_64 73/142 Verifying : p11-kit-0.23.20-1.fc32.x86_64 74/142 Verifying : p11-kit-trust-0.23.20-1.fc32.x86_64 75/142 Verifying : pam-1.3.1-24.fc32.x86_64 76/142 Verifying : patch-2.7.6-12.fc32.x86_64 77/142 Verifying : pcre-8.44-1.fc32.x86_64 78/142 Verifying : perl-srpm-macros-1-34.fc32.noarch 79/142 Verifying : pkgconf-1.6.3-3.fc32.x86_64 80/142 Verifying : pkgconf-m4-1.6.3-3.fc32.noarch 81/142 Verifying : pkgconf-pkg-config-1.6.3-3.fc32.x86_64 82/142 Verifying : popt-1.16-19.fc32.x86_64 83/142 Verifying : publicsuffix-list-dafsa-20190417-3.fc32.noarch 84/142 Verifying : qt5-srpm-macros-5.13.2-2.fc32.noarch 85/142 Verifying : readline-8.0-4.fc32.x86_64 86/142 Verifying : redhat-rpm-config-150-1.fc32.noarch 87/142 Verifying : sed-4.5-5.fc32.x86_64 88/142 Verifying : setup-2.13.6-2.fc32.noarch 89/142 Verifying : shadow-utils-2:4.8.1-2.fc32.x86_64 90/142 Verifying : systemd-libs-245.4-1.fc32.x86_64 91/142 Verifying : tar-2:1.32-4.fc32.x86_64 92/142 Verifying : unzip-6.0-47.fc32.x86_64 93/142 Verifying : which-2.21-19.fc32.x86_64 94/142 Verifying : xxhash-libs-0.7.3-1.fc32.x86_64 95/142 Verifying : xz-5.2.5-1.fc32.x86_64 96/142 Verifying : xz-libs-5.2.5-1.fc32.x86_64 97/142 Verifying : zip-3.0-26.fc32.x86_64 98/142 Verifying : zlib-1.2.11-21.fc32.x86_64 99/142 Verifying : binutils-2.34-3.fc32.x86_64 100/142 Verifying : binutils-gold-2.34-3.fc32.x86_64 101/142 Verifying : coreutils-8.32-4.fc32.1.x86_64 102/142 Verifying : coreutils-common-8.32-4.fc32.1.x86_64 103/142 Verifying : curl-7.69.1-3.fc32.x86_64 104/142 Verifying : elfutils-0.179-2.fc32.x86_64 105/142 Verifying : elfutils-default-yama-scope-0.179-2.fc32.noarch 106/142 Verifying : elfutils-libelf-0.179-2.fc32.x86_64 107/142 Verifying : elfutils-libs-0.179-2.fc32.x86_64 108/142 Verifying : fedora-gpg-keys-32-2.noarch 109/142 Verifying : fedora-release-32-2.noarch 110/142 Verifying : fedora-release-common-32-2.noarch 111/142 Verifying : fedora-repos-32-2.noarch 112/142 Verifying : findutils-1:4.7.0-4.fc32.x86_64 113/142 Verifying : gdb-minimal-9.1-5.fc32.x86_64 114/142 Verifying : libarchive-3.4.3-1.fc32.x86_64 115/142 Verifying : libblkid-2.35.2-1.fc32.x86_64 116/142 Verifying : libcurl-7.69.1-3.fc32.x86_64 117/142 Verifying : libfdisk-2.35.2-1.fc32.x86_64 118/142 Verifying : libgcc-10.1.1-1.fc32.x86_64 119/142 Verifying : libgomp-10.1.1-1.fc32.x86_64 120/142 Verifying : libmount-2.35.2-1.fc32.x86_64 121/142 Verifying : libsmartcols-2.35.2-1.fc32.x86_64 122/142 Verifying : libssh-0.9.4-2.fc32.x86_64 123/142 Verifying : libssh-config-0.9.4-2.fc32.noarch 124/142 Verifying : libstdc++-10.1.1-1.fc32.x86_64 125/142 Verifying : libtirpc-1.2.6-0.fc32.x86_64 126/142 Verifying : libuuid-2.35.2-1.fc32.x86_64 127/142 Verifying : libxcrypt-4.4.16-3.fc32.x86_64 128/142 Verifying : libzstd-1.4.5-3.fc32.x86_64 129/142 Verifying : mpfr-4.0.2-4.fc32.x86_64 130/142 Verifying : openssl-libs-1:1.1.1g-1.fc32.x86_64 131/142 Verifying : pcre2-10.35-1.fc32.x86_64 132/142 Verifying : pcre2-syntax-10.35-1.fc32.noarch 133/142 Verifying : python-srpm-macros-3-56.fc32.noarch 134/142 Verifying : rpm-4.15.1-3.fc32.1.x86_64 135/142 Verifying : rpm-build-4.15.1-3.fc32.1.x86_64 136/142 Verifying : rpm-build-libs-4.15.1-3.fc32.1.x86_64 137/142 Verifying : rpm-libs-4.15.1-3.fc32.1.x86_64 138/142 Verifying : rust-srpm-macros-14-1.fc32.noarch 139/142 Verifying : tzdata-2020a-1.fc32.noarch 140/142 Verifying : util-linux-2.35.2-1.fc32.x86_64 141/142 Verifying : zstd-1.4.5-3.fc32.x86_64 142/142 Installed: alternatives-1.11-6.fc32.x86_64 audit-libs-3.0-0.19.20191104git1c2f876.fc32.x86_64 basesystem-11-9.fc32.noarch bash-5.0.11-2.fc32.x86_64 binutils-2.34-3.fc32.x86_64 binutils-gold-2.34-3.fc32.x86_64 bzip2-1.0.8-2.fc32.x86_64 bzip2-libs-1.0.8-2.fc32.x86_64 ca-certificates-2020.2.40-3.fc32.noarch coreutils-8.32-4.fc32.1.x86_64 coreutils-common-8.32-4.fc32.1.x86_64 cpio-2.13-4.fc32.x86_64 cracklib-2.9.6-22.fc32.x86_64 crypto-policies-20191128-5.gitcd267a5.fc32.noarch curl-7.69.1-3.fc32.x86_64 cyrus-sasl-lib-2.1.27-4.fc32.x86_64 diffutils-3.7-4.fc32.x86_64 dwz-0.13-2.fc32.x86_64 efi-srpm-macros-4-4.fc32.noarch elfutils-0.179-2.fc32.x86_64 elfutils-default-yama-scope-0.179-2.fc32.noarch elfutils-libelf-0.179-2.fc32.x86_64 elfutils-libs-0.179-2.fc32.x86_64 expat-2.2.8-2.fc32.x86_64 fedora-gpg-keys-32-2.noarch fedora-release-32-2.noarch fedora-release-common-32-2.noarch fedora-repos-32-2.noarch file-5.38-2.fc32.x86_64 file-libs-5.38-2.fc32.x86_64 filesystem-3.14-2.fc32.x86_64 findutils-1:4.7.0-4.fc32.x86_64 fonts-srpm-macros-2.0.3-1.fc32.noarch fpc-srpm-macros-1.3-1.fc32.noarch gawk-5.0.1-7.fc32.x86_64 gc-8.0.4-3.fc32.x86_64 gdb-minimal-9.1-5.fc32.x86_64 ghc-srpm-macros-1.5.0-2.fc32.noarch glibc-2.31-2.fc32.x86_64 glibc-common-2.31-2.fc32.x86_64 glibc-minimal-langpack-2.31-2.fc32.x86_64 gmp-1:6.1.2-13.fc32.x86_64 gnat-srpm-macros-4-11.fc32.noarch go-srpm-macros-3.0.8-5.fc32.noarch grep-3.3-4.fc32.x86_64 guile22-2.2.6-4.fc32.x86_64 gzip-1.10-2.fc32.x86_64 info-6.7-6.fc32.x86_64 keyutils-libs-1.6-4.fc32.x86_64 krb5-libs-1.18-1.fc32.x86_64 libacl-2.2.53-5.fc32.x86_64 libarchive-3.4.3-1.fc32.x86_64 libattr-2.4.48-8.fc32.x86_64 libblkid-2.35.2-1.fc32.x86_64 libbrotli-1.0.7-10.fc32.x86_64 libcap-2.26-7.fc32.x86_64 libcap-ng-0.7.10-2.fc32.x86_64 libcom_err-1.45.5-3.fc32.x86_64 libcurl-7.69.1-3.fc32.x86_64 libdb-5.3.28-40.fc32.x86_64 libdb-utils-5.3.28-40.fc32.x86_64 libfdisk-2.35.2-1.fc32.x86_64 libffi-3.1-24.fc32.x86_64 libgcc-10.1.1-1.fc32.x86_64 libgcrypt-1.8.5-3.fc32.x86_64 libgomp-10.1.1-1.fc32.x86_64 libgpg-error-1.36-3.fc32.x86_64 libidn2-2.3.0-2.fc32.x86_64 libmetalink-0.1.3-10.fc32.x86_64 libmount-2.35.2-1.fc32.x86_64 libnghttp2-1.40.0-2.fc32.x86_64 libnsl2-1.2.0-6.20180605git4a062cf.fc32.x86_64 libpkgconf-1.6.3-3.fc32.x86_64 libpsl-0.21.0-4.fc32.x86_64 libpwquality-1.4.2-2.fc32.x86_64 libselinux-3.0-3.fc32.x86_64 libsemanage-3.0-3.fc32.x86_64 libsepol-3.0-3.fc32.x86_64 libsigsegv-2.11-10.fc32.x86_64 libsmartcols-2.35.2-1.fc32.x86_64 libssh-0.9.4-2.fc32.x86_64 libssh-config-0.9.4-2.fc32.noarch libstdc++-10.1.1-1.fc32.x86_64 libtasn1-4.16.0-1.fc32.x86_64 libtirpc-1.2.6-0.fc32.x86_64 libtool-ltdl-2.4.6-33.fc32.x86_64 libunistring-0.9.10-7.fc32.x86_64 libutempter-1.1.6-18.fc32.x86_64 libuuid-2.35.2-1.fc32.x86_64 libverto-0.3.0-9.fc32.x86_64 libxcrypt-4.4.16-3.fc32.x86_64 libxml2-2.9.10-3.fc32.x86_64 libzstd-1.4.5-3.fc32.x86_64 lua-libs-5.3.5-7.fc32.x86_64 lz4-libs-1.9.1-2.fc32.x86_64 make-1:4.2.1-16.fc32.x86_64 mpfr-4.0.2-4.fc32.x86_64 ncurses-6.1-15.20191109.fc32.x86_64 ncurses-base-6.1-15.20191109.fc32.noarch ncurses-libs-6.1-15.20191109.fc32.x86_64 nim-srpm-macros-3-2.fc32.noarch ocaml-srpm-macros-6-2.fc32.noarch openblas-srpm-macros-2-7.fc32.noarch openldap-2.4.47-4.fc32.x86_64 openssl-libs-1:1.1.1g-1.fc32.x86_64 p11-kit-0.23.20-1.fc32.x86_64 p11-kit-trust-0.23.20-1.fc32.x86_64 pam-1.3.1-24.fc32.x86_64 patch-2.7.6-12.fc32.x86_64 pcre-8.44-1.fc32.x86_64 pcre2-10.35-1.fc32.x86_64 pcre2-syntax-10.35-1.fc32.noarch perl-srpm-macros-1-34.fc32.noarch pkgconf-1.6.3-3.fc32.x86_64 pkgconf-m4-1.6.3-3.fc32.noarch pkgconf-pkg-config-1.6.3-3.fc32.x86_64 popt-1.16-19.fc32.x86_64 publicsuffix-list-dafsa-20190417-3.fc32.noarch python-srpm-macros-3-56.fc32.noarch qt5-srpm-macros-5.13.2-2.fc32.noarch readline-8.0-4.fc32.x86_64 redhat-rpm-config-150-1.fc32.noarch rpm-4.15.1-3.fc32.1.x86_64 rpm-build-4.15.1-3.fc32.1.x86_64 rpm-build-libs-4.15.1-3.fc32.1.x86_64 rpm-libs-4.15.1-3.fc32.1.x86_64 rust-srpm-macros-14-1.fc32.noarch sed-4.5-5.fc32.x86_64 setup-2.13.6-2.fc32.noarch shadow-utils-2:4.8.1-2.fc32.x86_64 systemd-libs-245.4-1.fc32.x86_64 tar-2:1.32-4.fc32.x86_64 tzdata-2020a-1.fc32.noarch unzip-6.0-47.fc32.x86_64 util-linux-2.35.2-1.fc32.x86_64 which-2.21-19.fc32.x86_64 xxhash-libs-0.7.3-1.fc32.x86_64 xz-5.2.5-1.fc32.x86_64 xz-libs-5.2.5-1.fc32.x86_64 zip-3.0-26.fc32.x86_64 zlib-1.2.11-21.fc32.x86_64 zstd-1.4.5-3.fc32.x86_64 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: Start: buildsrpm Start: rpmbuild -bs Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1590796800 Wrote: /builddir/build/SRPMS/rdkit-2019.03.3-8.fc32.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-32-x86_64-1590825942.548265/root/var/log/dnf.rpm.log /var/lib/mock/fedora-32-x86_64-1590825942.548265/root/var/log/dnf.librepo.log /var/lib/mock/fedora-32-x86_64-1590825942.548265/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/tmp/copr-rpmbuild-d92fqb_o/rdkit.spec) Config(child) 0 minutes 55 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 Running (timeout=86400): unbuffer mock --rebuild /var/lib/copr-rpmbuild/results/rdkit-2019.03.3-8.fc32.src.rpm --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1590825999.446553 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 2.2 starting (python version = 3.7.6)... 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-2019.03.3-8.fc32.src.rpm) Config(fedora-32-x86_64) Start: clean chroot Finish: clean chroot Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-32-x86_64-1590825999.446553/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: 2.2 INFO: Mock Version: 2.2 Start: dnf update No matches found for the following disable plugin patterns: local, spacewalk Copr repository 56 kB/s | 3.7 kB 00:00 fedora 127 kB/s | 17 kB 00:00 updates 300 kB/s | 15 kB 00:00 Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for rdkit-2019.03.3-8.fc32.src.rpm Start: build setup for rdkit-2019.03.3-8.fc32.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1590796800 Wrote: /builddir/build/SRPMS/rdkit-2019.03.3-8.fc32.src.rpm No matches found for the following disable plugin patterns: local, spacewalk Copr repository 181 kB/s | 3.7 kB 00:00 fedora 277 kB/s | 17 kB 00:00 updates 56 kB/s | 15 kB 00:00 Dependencies resolved. ================================================================================ Package Arch Version Repository Size ================================================================================ Installing: bison  x86_64 3.5-2.fc32 fedora 818 k boost-python3-devel  x86_64 1.69.0-18.fc32 updates 11 k cairo-devel  x86_64 1.16.0-8.fc32 updates 240 k catch-devel  x86_64 2.11.0-2.fc32 fedora 188 k chrpath  x86_64 0.16-12.fc32 fedora 30 k cmake  x86_64 3.17.2-1.fc32 updates 6.0 M eigen3-devel  noarch 3.3.7-3.fc31 fedora 883 k flex  x86_64 2.6.4-4.fc32 fedora 318 k gcc-c++  x86_64 10.1.1-1.fc32 updates 11 M inchi-devel  x86_64 1.0.5-9.fc32 fedora 23 k java-11-openjdk-devel  x86_64 1:11.0.7.10-1.fc32 copr_base 3.3 M junit  noarch 1:4.12-13.fc32 fedora 283 k libpq-devel  x86_64 12.2-1.fc32 fedora 98 k postgresql-server-devel  x86_64 12.2-1.fc32 fedora 1.0 M python3-devel  x86_64 3.8.3-1.fc32 updates 203 k python3-numpy  x86_64 1:1.18.4-2.fc32 updates 4.4 M swig  x86_64 4.0.1-7.fc32 fedora 1.4 M Installing dependencies: alsa-lib  x86_64 1.2.2-2.fc32 fedora 473 k annobin  x86_64 9.21-1.fc32 updates 112 k avahi-libs  x86_64 0.7-23.fc32 fedora 63 k boost  x86_64 1.69.0-18.fc32 updates 12 k boost-atomic  x86_64 1.69.0-18.fc32 updates 14 k boost-chrono  x86_64 1.69.0-18.fc32 updates 28 k boost-container  x86_64 1.69.0-18.fc32 updates 44 k boost-context  x86_64 1.69.0-18.fc32 updates 17 k boost-contract  x86_64 1.69.0-18.fc32 updates 54 k boost-coroutine  x86_64 1.69.0-18.fc32 updates 33 k boost-date-time  x86_64 1.69.0-18.fc32 updates 32 k boost-devel  x86_64 1.69.0-18.fc32 updates 9.9 M boost-fiber  x86_64 1.69.0-18.fc32 updates 41 k boost-filesystem  x86_64 1.69.0-18.fc32 updates 56 k boost-graph  x86_64 1.69.0-18.fc32 updates 123 k boost-iostreams  x86_64 1.69.0-18.fc32 updates 44 k boost-locale  x86_64 1.69.0-18.fc32 updates 269 k boost-log  x86_64 1.69.0-18.fc32 updates 483 k boost-math  x86_64 1.69.0-18.fc32 updates 341 k boost-numpy3  x86_64 1.69.0-18.fc32 updates 28 k boost-program-options  x86_64 1.69.0-18.fc32 updates 160 k boost-python3  x86_64 1.69.0-18.fc32 updates 101 k boost-random  x86_64 1.69.0-18.fc32 updates 26 k boost-regex  x86_64 1.69.0-18.fc32 updates 301 k boost-serialization  x86_64 1.69.0-18.fc32 updates 137 k boost-stacktrace  x86_64 1.69.0-18.fc32 updates 29 k boost-system  x86_64 1.69.0-18.fc32 updates 14 k boost-test  x86_64 1.69.0-18.fc32 updates 259 k boost-thread  x86_64 1.69.0-18.fc32 updates 67 k boost-timer  x86_64 1.69.0-18.fc32 updates 25 k boost-type_erasure  x86_64 1.69.0-18.fc32 updates 35 k boost-wave  x86_64 1.69.0-18.fc32 updates 238 k bzip2-devel  x86_64 1.0.8-2.fc32 fedora 214 k cairo  x86_64 1.16.0-8.fc32 updates 712 k cmake-data  noarch 3.17.2-1.fc32 updates 1.4 M cmake-filesystem  x86_64 3.17.2-1.fc32 updates 14 k cmake-rpm-macros  noarch 3.17.2-1.fc32 updates 13 k copy-jdk-configs  noarch 3.7-5.fc32 fedora 24 k cpp  x86_64 10.1.1-1.fc32 updates 9.4 M cups-libs  x86_64 1:2.3.3-2.fc32 updates 274 k dbus-libs  x86_64 1:1.12.16-4.fc32 fedora 162 k dejavu-sans-fonts  noarch 2.37-7.fc32 fedora 1.3 M emacs-filesystem  noarch 1:26.3-2.fc32 fedora 8.5 k expat-devel  x86_64 2.2.8-2.fc32 fedora 47 k fontconfig  x86_64 2.13.92-9.fc32 updates 265 k fontconfig-devel  x86_64 2.13.92-9.fc32 updates 129 k fonts-filesystem  noarch 2.0.3-1.fc32 fedora 7.8 k freetype  x86_64 2.10.1-2.fc32 fedora 384 k freetype-devel  x86_64 2.10.1-2.fc32 fedora 1.1 M gcc  x86_64 10.1.1-1.fc32 updates 30 M gdbm-libs  x86_64 1:1.18.1-3.fc32 fedora 54 k gettext  x86_64 0.20.2-1.fc32 updates 1.1 M gettext-libs  x86_64 0.20.2-1.fc32 updates 287 k giflib  x86_64 5.2.1-4.fc32 fedora 49 k glib2  x86_64 2.64.3-1.fc32 updates 2.7 M glib2-devel  x86_64 2.64.3-1.fc32 updates 460 k glibc-devel  x86_64 2.31-2.fc32 fedora 1.0 M glibc-headers  x86_64 2.31-2.fc32 fedora 456 k gnutls  x86_64 3.6.13-4.fc32 updates 981 k hamcrest-core  noarch 1.3-27.fc32 fedora 49 k inchi-libs  x86_64 1.0.5-9.fc32 fedora 555 k isl  x86_64 0.16.1-10.fc32 fedora 872 k java-11-openjdk  x86_64 1:11.0.7.10-1.fc32 copr_base 253 k java-11-openjdk-headless  x86_64 1:11.0.7.10-1.fc32 copr_base 38 M javapackages-filesystem  noarch 5.3.0-10.fc32 copr_base 12 k jsoncpp  x86_64 1.9.2-2.fc32 fedora 100 k kernel-headers  x86_64 5.6.11-300.fc32 updates 1.2 M keyutils-libs-devel  x86_64 1.6-4.fc32 fedora 49 k krb5-devel  x86_64 1.18-1.fc32 fedora 141 k langpacks-core-font-en  noarch 3.0-3.fc32 fedora 9.4 k lcms2  x86_64 2.9-7.fc32 fedora 167 k libX11  x86_64 1.6.9-3.fc32 fedora 660 k libX11-common  noarch 1.6.9-3.fc32 fedora 153 k libX11-devel  x86_64 1.6.9-3.fc32 fedora 938 k libX11-xcb  x86_64 1.6.9-3.fc32 fedora 11 k libXau  x86_64 1.0.9-3.fc32 fedora 31 k libXau-devel  x86_64 1.0.9-3.fc32 fedora 14 k libXcomposite  x86_64 0.4.5-2.fc32 fedora 23 k libXext  x86_64 1.3.4-3.fc32 fedora 39 k libXext-devel  x86_64 1.3.4-3.fc32 fedora 73 k libXi  x86_64 1.7.10-3.fc32 fedora 38 k libXrender  x86_64 0.9.10-11.fc32 fedora 27 k libXrender-devel  x86_64 0.9.10-11.fc32 fedora 16 k libXtst  x86_64 1.2.3-11.fc32 fedora 20 k libblkid-devel  x86_64 2.35.2-1.fc32 updates 16 k libcom_err-devel  x86_64 1.45.5-3.fc32 fedora 17 k libcroco  x86_64 0.6.13-3.fc32 fedora 111 k libffi-devel  x86_64 3.1-24.fc32 fedora 24 k libfontenc  x86_64 1.1.3-12.fc32 fedora 31 k libgfortran  x86_64 10.1.1-1.fc32 updates 823 k libicu  x86_64 65.1-2.fc32 fedora 9.6 M libicu-devel  x86_64 65.1-2.fc32 fedora 827 k libjpeg-turbo  x86_64 2.0.4-1.fc32 fedora 168 k libkadm5  x86_64 1.18-1.fc32 fedora 85 k libmount-devel  x86_64 2.35.2-1.fc32 updates 18 k libmpc  x86_64 1.1.0-8.fc32 fedora 59 k libpng  x86_64 2:1.6.37-3.fc32 fedora 116 k libpng-devel  x86_64 2:1.6.37-3.fc32 fedora 291 k libpq  x86_64 12.2-1.fc32 fedora 211 k libquadmath  x86_64 10.1.1-1.fc32 updates 197 k libquadmath-devel  x86_64 10.1.1-1.fc32 updates 34 k libselinux-devel  x86_64 3.0-3.fc32 fedora 116 k libsepol-devel  x86_64 3.0-3.fc32 fedora 41 k libstdc++-devel  x86_64 10.1.1-1.fc32 updates 2.0 M libtextstyle  x86_64 0.20.2-1.fc32 updates 57 k libuv  x86_64 1:1.38.0-2.fc32 updates 149 k libverto-devel  x86_64 0.3.0-9.fc32 fedora 14 k libxcb  x86_64 1.13.1-4.fc32 fedora 231 k libxcb-devel  x86_64 1.13.1-4.fc32 fedora 1.0 M libxcrypt-devel  x86_64 4.4.16-3.fc32 updates 34 k lksctp-tools  x86_64 1.0.18-4.fc32 fedora 96 k lua  x86_64 5.3.5-7.fc32 fedora 183 k lua-posix  x86_64 33.3.1-16.fc32 fedora 180 k m4  x86_64 1.4.18-12.fc32 fedora 218 k nettle  x86_64 3.5.1-5.fc32 fedora 314 k openblas  x86_64 0.3.9-2.fc32 fedora 30 k openblas-threads  x86_64 0.3.9-2.fc32 fedora 4.5 M pcre-cpp  x86_64 8.44-1.fc32 fedora 27 k pcre-devel  x86_64 8.44-1.fc32 fedora 472 k pcre-utf16  x86_64 8.44-1.fc32 fedora 186 k pcre-utf32  x86_64 8.44-1.fc32 fedora 176 k pcre2-devel  x86_64 10.35-1.fc32 updates 474 k pcre2-utf16  x86_64 10.35-1.fc32 updates 211 k pcre2-utf32  x86_64 10.35-1.fc32 updates 199 k pixman  x86_64 0.40.0-1.fc32 updates 270 k pixman-devel  x86_64 0.40.0-1.fc32 updates 17 k python-pip-wheel  noarch 19.3.1-3.fc32 updates 1.2 M python-rpm-macros  noarch 3-56.fc32 updates 13 k python-setuptools-wheel  noarch 41.6.0-2.fc32 fedora 282 k python3  x86_64 3.8.3-1.fc32 updates 29 k python3-libs  x86_64 3.8.3-1.fc32 updates 7.4 M python3-rpm-generators  noarch 10-4.fc32 fedora 24 k python3-rpm-macros  noarch 3-56.fc32 updates 11 k python3-setuptools  noarch 41.6.0-2.fc32 fedora 588 k rhash  x86_64 1.3.8-3.fc32 fedora 180 k sqlite-libs  x86_64 3.31.1-1.fc32 fedora 611 k ttmkfdir  x86_64 3.0.9-58.fc32 fedora 58 k tzdata-java  noarch 2020a-1.fc32 updates 156 k xorg-x11-font-utils  x86_64 1:7.5-44.fc32 fedora 104 k xorg-x11-fonts-Type1  noarch 7.5-24.fc32 fedora 500 k xorg-x11-proto-devel  noarch 2019.1-3.fc32 fedora 262 k zlib-devel  x86_64 1.2.11-21.fc32 fedora 45 k Transaction Summary ================================================================================ Install 159 Packages Total download size: 175 M Installed size: 731 M Downloading Packages: (1/159): java-11-openjdk-11.0.7.10-1.fc32.x86_6 7.3 MB/s | 253 kB 00:00 (2/159): javapackages-filesystem-5.3.0-10.fc32. 2.6 MB/s | 12 kB 00:00 (3/159): alsa-lib-1.2.2-2.fc32.x86_64.rpm 6.6 MB/s | 473 kB 00:00 (4/159): avahi-libs-0.7-23.fc32.x86_64.rpm 25 MB/s | 63 kB 00:00 (5/159): bison-3.5-2.fc32.x86_64.rpm 28 MB/s | 818 kB 00:00 (6/159): java-11-openjdk-devel-11.0.7.10-1.fc32 15 MB/s | 3.3 MB 00:00 (7/159): bzip2-devel-1.0.8-2.fc32.x86_64.rpm 809 kB/s | 214 kB 00:00 (8/159): chrpath-0.16-12.fc32.x86_64.rpm 874 kB/s | 30 kB 00:00 (9/159): java-11-openjdk-headless-11.0.7.10-1.f 57 MB/s | 38 MB 00:00 (10/159): copy-jdk-configs-3.7-5.fc32.noarch.rp 109 kB/s | 24 kB 00:00 (11/159): dbus-libs-1.12.16-4.fc32.x86_64.rpm 44 MB/s | 162 kB 00:00 (12/159): dejavu-sans-fonts-2.37-7.fc32.noarch. 106 MB/s | 1.3 MB 00:00 (13/159): emacs-filesystem-26.3-2.fc32.noarch.r 3.4 MB/s | 8.5 kB 00:00 (14/159): eigen3-devel-3.3.7-3.fc31.noarch.rpm 54 MB/s | 883 kB 00:00 (15/159): flex-2.6.4-4.fc32.x86_64.rpm 41 MB/s | 318 kB 00:00 (16/159): fonts-filesystem-2.0.3-1.fc32.noarch. 3.5 MB/s | 7.8 kB 00:00 (17/159): freetype-2.10.1-2.fc32.x86_64.rpm 77 MB/s | 384 kB 00:00 (18/159): freetype-devel-2.10.1-2.fc32.x86_64.r 59 MB/s | 1.1 MB 00:00 (19/159): gdbm-libs-1.18.1-3.fc32.x86_64.rpm 19 MB/s | 54 kB 00:00 (20/159): giflib-5.2.1-4.fc32.x86_64.rpm 12 MB/s | 49 kB 00:00 (21/159): glibc-devel-2.31-2.fc32.x86_64.rpm 86 MB/s | 1.0 MB 00:00 (22/159): glibc-headers-2.31-2.fc32.x86_64.rpm 24 MB/s | 456 kB 00:00 (23/159): catch-devel-2.11.0-2.fc32.x86_64.rpm 306 kB/s | 188 kB 00:00 (24/159): hamcrest-core-1.3-27.fc32.noarch.rpm 233 kB/s | 49 kB 00:00 (25/159): inchi-devel-1.0.5-9.fc32.x86_64.rpm 107 kB/s | 23 kB 00:00 (26/159): isl-0.16.1-10.fc32.x86_64.rpm 101 MB/s | 872 kB 00:00 (27/159): jsoncpp-1.9.2-2.fc32.x86_64.rpm 28 MB/s | 100 kB 00:00 (28/159): expat-devel-2.2.8-2.fc32.x86_64.rpm 100 kB/s | 47 kB 00:00 (29/159): keyutils-libs-devel-1.6-4.fc32.x86_64 9.2 MB/s | 49 kB 00:00 (30/159): junit-4.12-13.fc32.noarch.rpm 1.3 MB/s | 283 kB 00:00 (31/159): langpacks-core-font-en-3.0-3.fc32.noa 3.9 MB/s | 9.4 kB 00:00 (32/159): lcms2-2.9-7.fc32.x86_64.rpm 52 MB/s | 167 kB 00:00 (33/159): libX11-1.6.9-3.fc32.x86_64.rpm 96 MB/s | 660 kB 00:00 (34/159): libX11-common-1.6.9-3.fc32.noarch.rpm 49 MB/s | 153 kB 00:00 (35/159): libX11-devel-1.6.9-3.fc32.x86_64.rpm 103 MB/s | 938 kB 00:00 (36/159): libX11-xcb-1.6.9-3.fc32.x86_64.rpm 5.4 MB/s | 11 kB 00:00 (37/159): libXau-1.0.9-3.fc32.x86_64.rpm 12 MB/s | 31 kB 00:00 (38/159): libXau-devel-1.0.9-3.fc32.x86_64.rpm 6.4 MB/s | 14 kB 00:00 (39/159): libXcomposite-0.4.5-2.fc32.x86_64.rpm 6.5 MB/s | 23 kB 00:00 (40/159): libXext-1.3.4-3.fc32.x86_64.rpm 16 MB/s | 39 kB 00:00 (41/159): libXext-devel-1.3.4-3.fc32.x86_64.rpm 29 MB/s | 73 kB 00:00 (42/159): libXi-1.7.10-3.fc32.x86_64.rpm 17 MB/s | 38 kB 00:00 (43/159): libXrender-0.9.10-11.fc32.x86_64.rpm 12 MB/s | 27 kB 00:00 (44/159): libXrender-devel-0.9.10-11.fc32.x86_6 6.9 MB/s | 16 kB 00:00 (45/159): libXtst-1.2.3-11.fc32.x86_64.rpm 8.7 MB/s | 20 kB 00:00 (46/159): libcom_err-devel-1.45.5-3.fc32.x86_64 2.8 MB/s | 17 kB 00:00 (47/159): libcroco-0.6.13-3.fc32.x86_64.rpm 40 MB/s | 111 kB 00:00 (48/159): libffi-devel-3.1-24.fc32.x86_64.rpm 10 MB/s | 24 kB 00:00 (49/159): libfontenc-1.1.3-12.fc32.x86_64.rpm 7.2 MB/s | 31 kB 00:00 (50/159): libicu-65.1-2.fc32.x86_64.rpm 107 MB/s | 9.6 MB 00:00 (51/159): libicu-devel-65.1-2.fc32.x86_64.rpm 95 MB/s | 827 kB 00:00 (52/159): libjpeg-turbo-2.0.4-1.fc32.x86_64.rpm 44 MB/s | 168 kB 00:00 (53/159): libkadm5-1.18-1.fc32.x86_64.rpm 14 MB/s | 85 kB 00:00 (54/159): libmpc-1.1.0-8.fc32.x86_64.rpm 22 MB/s | 59 kB 00:00 (55/159): libpng-1.6.37-3.fc32.x86_64.rpm 22 MB/s | 116 kB 00:00 (56/159): libpng-devel-1.6.37-3.fc32.x86_64.rpm 29 MB/s | 291 kB 00:00 (57/159): libpq-12.2-1.fc32.x86_64.rpm 32 MB/s | 211 kB 00:00 (58/159): krb5-devel-1.18-1.fc32.x86_64.rpm 232 kB/s | 141 kB 00:00 (59/159): libselinux-devel-3.0-3.fc32.x86_64.rp 33 MB/s | 116 kB 00:00 (60/159): libsepol-devel-3.0-3.fc32.x86_64.rpm 12 MB/s | 41 kB 00:00 (61/159): libverto-devel-0.3.0-9.fc32.x86_64.rp 2.6 MB/s | 14 kB 00:00 (62/159): libxcb-1.13.1-4.fc32.x86_64.rpm 61 MB/s | 231 kB 00:00 (63/159): libxcb-devel-1.13.1-4.fc32.x86_64.rpm 105 MB/s | 1.0 MB 00:00 (64/159): lksctp-tools-1.0.18-4.fc32.x86_64.rpm 21 MB/s | 96 kB 00:00 (65/159): lua-5.3.5-7.fc32.x86_64.rpm 32 MB/s | 183 kB 00:00 (66/159): lua-posix-33.3.1-16.fc32.x86_64.rpm 32 MB/s | 180 kB 00:00 (67/159): m4-1.4.18-12.fc32.x86_64.rpm 39 MB/s | 218 kB 00:00 (68/159): nettle-3.5.1-5.fc32.x86_64.rpm 70 MB/s | 314 kB 00:00 (69/159): openblas-0.3.9-2.fc32.x86_64.rpm 6.6 MB/s | 30 kB 00:00 (70/159): openblas-threads-0.3.9-2.fc32.x86_64. 81 MB/s | 4.5 MB 00:00 (71/159): pcre-cpp-8.44-1.fc32.x86_64.rpm 12 MB/s | 27 kB 00:00 (72/159): pcre-devel-8.44-1.fc32.x86_64.rpm 86 MB/s | 472 kB 00:00 (73/159): pcre-utf16-8.44-1.fc32.x86_64.rpm 47 MB/s | 186 kB 00:00 (74/159): pcre-utf32-8.44-1.fc32.x86_64.rpm 53 MB/s | 176 kB 00:00 (75/159): inchi-libs-1.0.5-9.fc32.x86_64.rpm 481 kB/s | 555 kB 00:01 (76/159): python-setuptools-wheel-41.6.0-2.fc32 66 MB/s | 282 kB 00:00 (77/159): python3-rpm-generators-10-4.fc32.noar 11 MB/s | 24 kB 00:00 (78/159): python3-setuptools-41.6.0-2.fc32.noar 91 MB/s | 588 kB 00:00 (79/159): rhash-1.3.8-3.fc32.x86_64.rpm 50 MB/s | 180 kB 00:00 (80/159): sqlite-libs-3.31.1-1.fc32.x86_64.rpm 86 MB/s | 611 kB 00:00 (81/159): swig-4.0.1-7.fc32.x86_64.rpm 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Running transaction test Transaction test succeeded. 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Installing : flex-2.6.4-4.fc32.x86_64 155/159 Installing : catch-devel-2.11.0-2.fc32.x86_64 156/159 Installing : swig-4.0.1-7.fc32.x86_64 157/159 Installing : eigen3-devel-3.3.7-3.fc31.noarch 158/159 Installing : chrpath-0.16-12.fc32.x86_64 159/159 Running scriptlet: copy-jdk-configs-3.7-5.fc32.noarch 159/159 Running scriptlet: java-11-openjdk-1:11.0.7.10-1.fc32.x86_64 159/159 Running scriptlet: java-11-openjdk-devel-1:11.0.7.10-1.fc32.x86_64 159/159 Running scriptlet: chrpath-0.16-12.fc32.x86_64 159/159 Verifying : java-11-openjdk-1:11.0.7.10-1.fc32.x86_64 1/159 Verifying : java-11-openjdk-devel-1:11.0.7.10-1.fc32.x86_64 2/159 Verifying : java-11-openjdk-headless-1:11.0.7.10-1.fc32.x86_ 3/159 Verifying : javapackages-filesystem-5.3.0-10.fc32.noarch 4/159 Verifying : alsa-lib-1.2.2-2.fc32.x86_64 5/159 Verifying : avahi-libs-0.7-23.fc32.x86_64 6/159 Verifying : bison-3.5-2.fc32.x86_64 7/159 Verifying : bzip2-devel-1.0.8-2.fc32.x86_64 8/159 Verifying : catch-devel-2.11.0-2.fc32.x86_64 9/159 Verifying : chrpath-0.16-12.fc32.x86_64 10/159 Verifying : copy-jdk-configs-3.7-5.fc32.noarch 11/159 Verifying : dbus-libs-1:1.12.16-4.fc32.x86_64 12/159 Verifying : dejavu-sans-fonts-2.37-7.fc32.noarch 13/159 Verifying : eigen3-devel-3.3.7-3.fc31.noarch 14/159 Verifying : emacs-filesystem-1:26.3-2.fc32.noarch 15/159 Verifying : expat-devel-2.2.8-2.fc32.x86_64 16/159 Verifying : flex-2.6.4-4.fc32.x86_64 17/159 Verifying : fonts-filesystem-2.0.3-1.fc32.noarch 18/159 Verifying : freetype-2.10.1-2.fc32.x86_64 19/159 Verifying : freetype-devel-2.10.1-2.fc32.x86_64 20/159 Verifying : gdbm-libs-1:1.18.1-3.fc32.x86_64 21/159 Verifying : giflib-5.2.1-4.fc32.x86_64 22/159 Verifying : glibc-devel-2.31-2.fc32.x86_64 23/159 Verifying : glibc-headers-2.31-2.fc32.x86_64 24/159 Verifying : hamcrest-core-1.3-27.fc32.noarch 25/159 Verifying : inchi-devel-1.0.5-9.fc32.x86_64 26/159 Verifying : inchi-libs-1.0.5-9.fc32.x86_64 27/159 Verifying : isl-0.16.1-10.fc32.x86_64 28/159 Verifying : jsoncpp-1.9.2-2.fc32.x86_64 29/159 Verifying : junit-1:4.12-13.fc32.noarch 30/159 Verifying : keyutils-libs-devel-1.6-4.fc32.x86_64 31/159 Verifying : krb5-devel-1.18-1.fc32.x86_64 32/159 Verifying : langpacks-core-font-en-3.0-3.fc32.noarch 33/159 Verifying : lcms2-2.9-7.fc32.x86_64 34/159 Verifying : libX11-1.6.9-3.fc32.x86_64 35/159 Verifying : libX11-common-1.6.9-3.fc32.noarch 36/159 Verifying : libX11-devel-1.6.9-3.fc32.x86_64 37/159 Verifying : libX11-xcb-1.6.9-3.fc32.x86_64 38/159 Verifying : libXau-1.0.9-3.fc32.x86_64 39/159 Verifying : libXau-devel-1.0.9-3.fc32.x86_64 40/159 Verifying : libXcomposite-0.4.5-2.fc32.x86_64 41/159 Verifying : libXext-1.3.4-3.fc32.x86_64 42/159 Verifying : libXext-devel-1.3.4-3.fc32.x86_64 43/159 Verifying : libXi-1.7.10-3.fc32.x86_64 44/159 Verifying : libXrender-0.9.10-11.fc32.x86_64 45/159 Verifying : libXrender-devel-0.9.10-11.fc32.x86_64 46/159 Verifying : libXtst-1.2.3-11.fc32.x86_64 47/159 Verifying : libcom_err-devel-1.45.5-3.fc32.x86_64 48/159 Verifying : libcroco-0.6.13-3.fc32.x86_64 49/159 Verifying : libffi-devel-3.1-24.fc32.x86_64 50/159 Verifying : libfontenc-1.1.3-12.fc32.x86_64 51/159 Verifying : libicu-65.1-2.fc32.x86_64 52/159 Verifying : libicu-devel-65.1-2.fc32.x86_64 53/159 Verifying : libjpeg-turbo-2.0.4-1.fc32.x86_64 54/159 Verifying : libkadm5-1.18-1.fc32.x86_64 55/159 Verifying : libmpc-1.1.0-8.fc32.x86_64 56/159 Verifying : libpng-2:1.6.37-3.fc32.x86_64 57/159 Verifying : libpng-devel-2:1.6.37-3.fc32.x86_64 58/159 Verifying : libpq-12.2-1.fc32.x86_64 59/159 Verifying : libpq-devel-12.2-1.fc32.x86_64 60/159 Verifying : libselinux-devel-3.0-3.fc32.x86_64 61/159 Verifying : libsepol-devel-3.0-3.fc32.x86_64 62/159 Verifying : libverto-devel-0.3.0-9.fc32.x86_64 63/159 Verifying : libxcb-1.13.1-4.fc32.x86_64 64/159 Verifying : libxcb-devel-1.13.1-4.fc32.x86_64 65/159 Verifying : lksctp-tools-1.0.18-4.fc32.x86_64 66/159 Verifying : lua-5.3.5-7.fc32.x86_64 67/159 Verifying : lua-posix-33.3.1-16.fc32.x86_64 68/159 Verifying : m4-1.4.18-12.fc32.x86_64 69/159 Verifying : nettle-3.5.1-5.fc32.x86_64 70/159 Verifying : openblas-0.3.9-2.fc32.x86_64 71/159 Verifying : openblas-threads-0.3.9-2.fc32.x86_64 72/159 Verifying : pcre-cpp-8.44-1.fc32.x86_64 73/159 Verifying : pcre-devel-8.44-1.fc32.x86_64 74/159 Verifying : pcre-utf16-8.44-1.fc32.x86_64 75/159 Verifying : pcre-utf32-8.44-1.fc32.x86_64 76/159 Verifying : postgresql-server-devel-12.2-1.fc32.x86_64 77/159 Verifying : python-setuptools-wheel-41.6.0-2.fc32.noarch 78/159 Verifying : python3-rpm-generators-10-4.fc32.noarch 79/159 Verifying : python3-setuptools-41.6.0-2.fc32.noarch 80/159 Verifying : rhash-1.3.8-3.fc32.x86_64 81/159 Verifying : sqlite-libs-3.31.1-1.fc32.x86_64 82/159 Verifying : swig-4.0.1-7.fc32.x86_64 83/159 Verifying : ttmkfdir-3.0.9-58.fc32.x86_64 84/159 Verifying : xorg-x11-font-utils-1:7.5-44.fc32.x86_64 85/159 Verifying : xorg-x11-fonts-Type1-7.5-24.fc32.noarch 86/159 Verifying : xorg-x11-proto-devel-2019.1-3.fc32.noarch 87/159 Verifying : zlib-devel-1.2.11-21.fc32.x86_64 88/159 Verifying : annobin-9.21-1.fc32.x86_64 89/159 Verifying : boost-1.69.0-18.fc32.x86_64 90/159 Verifying : boost-atomic-1.69.0-18.fc32.x86_64 91/159 Verifying : boost-chrono-1.69.0-18.fc32.x86_64 92/159 Verifying : boost-container-1.69.0-18.fc32.x86_64 93/159 Verifying : boost-context-1.69.0-18.fc32.x86_64 94/159 Verifying : boost-contract-1.69.0-18.fc32.x86_64 95/159 Verifying : boost-coroutine-1.69.0-18.fc32.x86_64 96/159 Verifying : boost-date-time-1.69.0-18.fc32.x86_64 97/159 Verifying : boost-devel-1.69.0-18.fc32.x86_64 98/159 Verifying : boost-fiber-1.69.0-18.fc32.x86_64 99/159 Verifying : boost-filesystem-1.69.0-18.fc32.x86_64 100/159 Verifying : boost-graph-1.69.0-18.fc32.x86_64 101/159 Verifying : boost-iostreams-1.69.0-18.fc32.x86_64 102/159 Verifying : boost-locale-1.69.0-18.fc32.x86_64 103/159 Verifying : boost-log-1.69.0-18.fc32.x86_64 104/159 Verifying : boost-math-1.69.0-18.fc32.x86_64 105/159 Verifying : boost-numpy3-1.69.0-18.fc32.x86_64 106/159 Verifying : boost-program-options-1.69.0-18.fc32.x86_64 107/159 Verifying : boost-python3-1.69.0-18.fc32.x86_64 108/159 Verifying : boost-python3-devel-1.69.0-18.fc32.x86_64 109/159 Verifying : boost-random-1.69.0-18.fc32.x86_64 110/159 Verifying : boost-regex-1.69.0-18.fc32.x86_64 111/159 Verifying : boost-serialization-1.69.0-18.fc32.x86_64 112/159 Verifying : boost-stacktrace-1.69.0-18.fc32.x86_64 113/159 Verifying : boost-system-1.69.0-18.fc32.x86_64 114/159 Verifying : boost-test-1.69.0-18.fc32.x86_64 115/159 Verifying : boost-thread-1.69.0-18.fc32.x86_64 116/159 Verifying : boost-timer-1.69.0-18.fc32.x86_64 117/159 Verifying : boost-type_erasure-1.69.0-18.fc32.x86_64 118/159 Verifying : boost-wave-1.69.0-18.fc32.x86_64 119/159 Verifying : cairo-1.16.0-8.fc32.x86_64 120/159 Verifying : cairo-devel-1.16.0-8.fc32.x86_64 121/159 Verifying : cmake-3.17.2-1.fc32.x86_64 122/159 Verifying : cmake-data-3.17.2-1.fc32.noarch 123/159 Verifying : cmake-filesystem-3.17.2-1.fc32.x86_64 124/159 Verifying : cmake-rpm-macros-3.17.2-1.fc32.noarch 125/159 Verifying : cpp-10.1.1-1.fc32.x86_64 126/159 Verifying : cups-libs-1:2.3.3-2.fc32.x86_64 127/159 Verifying : fontconfig-2.13.92-9.fc32.x86_64 128/159 Verifying : fontconfig-devel-2.13.92-9.fc32.x86_64 129/159 Verifying : gcc-10.1.1-1.fc32.x86_64 130/159 Verifying : gcc-c++-10.1.1-1.fc32.x86_64 131/159 Verifying : gettext-0.20.2-1.fc32.x86_64 132/159 Verifying : gettext-libs-0.20.2-1.fc32.x86_64 133/159 Verifying : glib2-2.64.3-1.fc32.x86_64 134/159 Verifying : glib2-devel-2.64.3-1.fc32.x86_64 135/159 Verifying : gnutls-3.6.13-4.fc32.x86_64 136/159 Verifying : kernel-headers-5.6.11-300.fc32.x86_64 137/159 Verifying : libblkid-devel-2.35.2-1.fc32.x86_64 138/159 Verifying : libgfortran-10.1.1-1.fc32.x86_64 139/159 Verifying : libmount-devel-2.35.2-1.fc32.x86_64 140/159 Verifying : libquadmath-10.1.1-1.fc32.x86_64 141/159 Verifying : libquadmath-devel-10.1.1-1.fc32.x86_64 142/159 Verifying : libstdc++-devel-10.1.1-1.fc32.x86_64 143/159 Verifying : libtextstyle-0.20.2-1.fc32.x86_64 144/159 Verifying : libuv-1:1.38.0-2.fc32.x86_64 145/159 Verifying : libxcrypt-devel-4.4.16-3.fc32.x86_64 146/159 Verifying : pcre2-devel-10.35-1.fc32.x86_64 147/159 Verifying : pcre2-utf16-10.35-1.fc32.x86_64 148/159 Verifying : pcre2-utf32-10.35-1.fc32.x86_64 149/159 Verifying : pixman-0.40.0-1.fc32.x86_64 150/159 Verifying : pixman-devel-0.40.0-1.fc32.x86_64 151/159 Verifying : python-pip-wheel-19.3.1-3.fc32.noarch 152/159 Verifying : python-rpm-macros-3-56.fc32.noarch 153/159 Verifying : python3-3.8.3-1.fc32.x86_64 154/159 Verifying : python3-devel-3.8.3-1.fc32.x86_64 155/159 Verifying : python3-libs-3.8.3-1.fc32.x86_64 156/159 Verifying : python3-numpy-1:1.18.4-2.fc32.x86_64 157/159 Verifying : python3-rpm-macros-3-56.fc32.noarch 158/159 Verifying : tzdata-java-2020a-1.fc32.noarch 159/159 Installed: alsa-lib-1.2.2-2.fc32.x86_64 annobin-9.21-1.fc32.x86_64 avahi-libs-0.7-23.fc32.x86_64 bison-3.5-2.fc32.x86_64 boost-1.69.0-18.fc32.x86_64 boost-atomic-1.69.0-18.fc32.x86_64 boost-chrono-1.69.0-18.fc32.x86_64 boost-container-1.69.0-18.fc32.x86_64 boost-context-1.69.0-18.fc32.x86_64 boost-contract-1.69.0-18.fc32.x86_64 boost-coroutine-1.69.0-18.fc32.x86_64 boost-date-time-1.69.0-18.fc32.x86_64 boost-devel-1.69.0-18.fc32.x86_64 boost-fiber-1.69.0-18.fc32.x86_64 boost-filesystem-1.69.0-18.fc32.x86_64 boost-graph-1.69.0-18.fc32.x86_64 boost-iostreams-1.69.0-18.fc32.x86_64 boost-locale-1.69.0-18.fc32.x86_64 boost-log-1.69.0-18.fc32.x86_64 boost-math-1.69.0-18.fc32.x86_64 boost-numpy3-1.69.0-18.fc32.x86_64 boost-program-options-1.69.0-18.fc32.x86_64 boost-python3-1.69.0-18.fc32.x86_64 boost-python3-devel-1.69.0-18.fc32.x86_64 boost-random-1.69.0-18.fc32.x86_64 boost-regex-1.69.0-18.fc32.x86_64 boost-serialization-1.69.0-18.fc32.x86_64 boost-stacktrace-1.69.0-18.fc32.x86_64 boost-system-1.69.0-18.fc32.x86_64 boost-test-1.69.0-18.fc32.x86_64 boost-thread-1.69.0-18.fc32.x86_64 boost-timer-1.69.0-18.fc32.x86_64 boost-type_erasure-1.69.0-18.fc32.x86_64 boost-wave-1.69.0-18.fc32.x86_64 bzip2-devel-1.0.8-2.fc32.x86_64 cairo-1.16.0-8.fc32.x86_64 cairo-devel-1.16.0-8.fc32.x86_64 catch-devel-2.11.0-2.fc32.x86_64 chrpath-0.16-12.fc32.x86_64 cmake-3.17.2-1.fc32.x86_64 cmake-data-3.17.2-1.fc32.noarch cmake-filesystem-3.17.2-1.fc32.x86_64 cmake-rpm-macros-3.17.2-1.fc32.noarch copy-jdk-configs-3.7-5.fc32.noarch cpp-10.1.1-1.fc32.x86_64 cups-libs-1:2.3.3-2.fc32.x86_64 dbus-libs-1:1.12.16-4.fc32.x86_64 dejavu-sans-fonts-2.37-7.fc32.noarch eigen3-devel-3.3.7-3.fc31.noarch emacs-filesystem-1:26.3-2.fc32.noarch expat-devel-2.2.8-2.fc32.x86_64 flex-2.6.4-4.fc32.x86_64 fontconfig-2.13.92-9.fc32.x86_64 fontconfig-devel-2.13.92-9.fc32.x86_64 fonts-filesystem-2.0.3-1.fc32.noarch freetype-2.10.1-2.fc32.x86_64 freetype-devel-2.10.1-2.fc32.x86_64 gcc-10.1.1-1.fc32.x86_64 gcc-c++-10.1.1-1.fc32.x86_64 gdbm-libs-1:1.18.1-3.fc32.x86_64 gettext-0.20.2-1.fc32.x86_64 gettext-libs-0.20.2-1.fc32.x86_64 giflib-5.2.1-4.fc32.x86_64 glib2-2.64.3-1.fc32.x86_64 glib2-devel-2.64.3-1.fc32.x86_64 glibc-devel-2.31-2.fc32.x86_64 glibc-headers-2.31-2.fc32.x86_64 gnutls-3.6.13-4.fc32.x86_64 hamcrest-core-1.3-27.fc32.noarch inchi-devel-1.0.5-9.fc32.x86_64 inchi-libs-1.0.5-9.fc32.x86_64 isl-0.16.1-10.fc32.x86_64 java-11-openjdk-1:11.0.7.10-1.fc32.x86_64 java-11-openjdk-devel-1:11.0.7.10-1.fc32.x86_64 java-11-openjdk-headless-1:11.0.7.10-1.fc32.x86_64 javapackages-filesystem-5.3.0-10.fc32.noarch jsoncpp-1.9.2-2.fc32.x86_64 junit-1:4.12-13.fc32.noarch kernel-headers-5.6.11-300.fc32.x86_64 keyutils-libs-devel-1.6-4.fc32.x86_64 krb5-devel-1.18-1.fc32.x86_64 langpacks-core-font-en-3.0-3.fc32.noarch lcms2-2.9-7.fc32.x86_64 libX11-1.6.9-3.fc32.x86_64 libX11-common-1.6.9-3.fc32.noarch libX11-devel-1.6.9-3.fc32.x86_64 libX11-xcb-1.6.9-3.fc32.x86_64 libXau-1.0.9-3.fc32.x86_64 libXau-devel-1.0.9-3.fc32.x86_64 libXcomposite-0.4.5-2.fc32.x86_64 libXext-1.3.4-3.fc32.x86_64 libXext-devel-1.3.4-3.fc32.x86_64 libXi-1.7.10-3.fc32.x86_64 libXrender-0.9.10-11.fc32.x86_64 libXrender-devel-0.9.10-11.fc32.x86_64 libXtst-1.2.3-11.fc32.x86_64 libblkid-devel-2.35.2-1.fc32.x86_64 libcom_err-devel-1.45.5-3.fc32.x86_64 libcroco-0.6.13-3.fc32.x86_64 libffi-devel-3.1-24.fc32.x86_64 libfontenc-1.1.3-12.fc32.x86_64 libgfortran-10.1.1-1.fc32.x86_64 libicu-65.1-2.fc32.x86_64 libicu-devel-65.1-2.fc32.x86_64 libjpeg-turbo-2.0.4-1.fc32.x86_64 libkadm5-1.18-1.fc32.x86_64 libmount-devel-2.35.2-1.fc32.x86_64 libmpc-1.1.0-8.fc32.x86_64 libpng-2:1.6.37-3.fc32.x86_64 libpng-devel-2:1.6.37-3.fc32.x86_64 libpq-12.2-1.fc32.x86_64 libpq-devel-12.2-1.fc32.x86_64 libquadmath-10.1.1-1.fc32.x86_64 libquadmath-devel-10.1.1-1.fc32.x86_64 libselinux-devel-3.0-3.fc32.x86_64 libsepol-devel-3.0-3.fc32.x86_64 libstdc++-devel-10.1.1-1.fc32.x86_64 libtextstyle-0.20.2-1.fc32.x86_64 libuv-1:1.38.0-2.fc32.x86_64 libverto-devel-0.3.0-9.fc32.x86_64 libxcb-1.13.1-4.fc32.x86_64 libxcb-devel-1.13.1-4.fc32.x86_64 libxcrypt-devel-4.4.16-3.fc32.x86_64 lksctp-tools-1.0.18-4.fc32.x86_64 lua-5.3.5-7.fc32.x86_64 lua-posix-33.3.1-16.fc32.x86_64 m4-1.4.18-12.fc32.x86_64 nettle-3.5.1-5.fc32.x86_64 openblas-0.3.9-2.fc32.x86_64 openblas-threads-0.3.9-2.fc32.x86_64 pcre-cpp-8.44-1.fc32.x86_64 pcre-devel-8.44-1.fc32.x86_64 pcre-utf16-8.44-1.fc32.x86_64 pcre-utf32-8.44-1.fc32.x86_64 pcre2-devel-10.35-1.fc32.x86_64 pcre2-utf16-10.35-1.fc32.x86_64 pcre2-utf32-10.35-1.fc32.x86_64 pixman-0.40.0-1.fc32.x86_64 pixman-devel-0.40.0-1.fc32.x86_64 postgresql-server-devel-12.2-1.fc32.x86_64 python-pip-wheel-19.3.1-3.fc32.noarch python-rpm-macros-3-56.fc32.noarch python-setuptools-wheel-41.6.0-2.fc32.noarch python3-3.8.3-1.fc32.x86_64 python3-devel-3.8.3-1.fc32.x86_64 python3-libs-3.8.3-1.fc32.x86_64 python3-numpy-1:1.18.4-2.fc32.x86_64 python3-rpm-generators-10-4.fc32.noarch python3-rpm-macros-3-56.fc32.noarch python3-setuptools-41.6.0-2.fc32.noarch rhash-1.3.8-3.fc32.x86_64 sqlite-libs-3.31.1-1.fc32.x86_64 swig-4.0.1-7.fc32.x86_64 ttmkfdir-3.0.9-58.fc32.x86_64 tzdata-java-2020a-1.fc32.noarch xorg-x11-font-utils-1:7.5-44.fc32.x86_64 xorg-x11-fonts-Type1-7.5-24.fc32.noarch xorg-x11-proto-devel-2019.1-3.fc32.noarch zlib-devel-1.2.11-21.fc32.x86_64 Complete! Finish: build setup for rdkit-2019.03.3-8.fc32.src.rpm Start: rpmbuild rdkit-2019.03.3-8.fc32.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1590796800 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.aAkjhx + 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/tar -xof - + /usr/bin/gzip -dc /builddir/build/SOURCES/Release_2019_03_3.tar.gz + 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). Patch #1 (rdkit-2018.03-do_not_install_sping.patch): + echo '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 + xargs sed -i '1s|^#!.*|#!/usr/bin/python3|' + find python3 -name '*.py' + 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.wvfiyx + 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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,--as-needed' + CXXFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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 + /usr/bin/cmake -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_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=python38 -D CATCH_DIR:FILEPATH=/usr/include/catch2 . -- The C compiler identification is GNU 10.1.1 -- The CXX compiler identification is GNU 10.1.1 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc - works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ - works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- 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:272 (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 "3.8.3") -- Found PythonLibs: /usr/lib64/libpython3.8.so (found version "3.8.3") Python Install directory /usr/lib64/python3.8/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 "1.69.0", minimum required is "1.56.0") found components: serialization -- Found PostgreSQL: /usr/lib64/libpq.so (found version "12.2") == Using strict rotor definition -- Found Boost: /usr/include (found suitable version "1.69.0", 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 "1.6.3") -- Checking for module 'cairo' -- Found cairo, version 1.16.0 -- 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 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]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make 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/builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/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= [ 0%] Built target inchi_support 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= Scanning dependencies of target coordgen_support 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' 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 [ 0%] Built target coordgen_support 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' make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -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= [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 Scanning dependencies of target hc make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' make -f 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-fno-strict-aliasing -fPIC -O2 -g -DNDEBUG -fPIC -o CMakeFiles/hc.dir/hc.c.o -c /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh/hc.c [ 0%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/ML/Cluster/Murtagh && /usr/bin/cc -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/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/cc -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/utils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/RDGeneral && /usr/bin/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -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= cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3 && /usr/bin/cmake -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= 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 [ 2%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o make[2]: Entering directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Numerics/EigenSolvers && /usr/bin/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 5%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 7%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 8%] Built target rdBase 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' [ 8%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/UniformGrid3D.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry && /usr/bin/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 9%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 9%] 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= 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' [ 9%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 /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); | ^~~~~~~~~~~~~~~~~ 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/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= /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) { | ^~~~~~~~~~~~~ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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: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) { | ^~~~~~~~~~~~~ [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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_SparseBV.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/DataStructs/Wrap && /usr/bin/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 14%] 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' [ 14%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 14%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 14%] 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' [ 15%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 15%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 15%] 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' [ 15%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 15%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 16%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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 /usr/bin/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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' [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/Bond.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol && /usr/bin/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 23%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -lboost_serialization ../../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 23%] 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' [ 23%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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' [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/smiles.tab.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/SmilesParse && /usr/bin/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolCatalog && /usr/bin/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 25%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 /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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -lboost_serialization ../../../lib/libRDKitRDGeneral.so.1.2019.03.3 -lpthread 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 26%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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) { | ~~~~~^~~~~~~~~~ [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 31%] Built target graphmolSGroupCatch 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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= 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/FilterCatalog && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/RDKitFPGenerator.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/FingerprintUtil.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Fingerprints && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 36%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 36%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 37%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 /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: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h: In function 'boost::python::tuple RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:31: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:43: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:56:55: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] 56 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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' [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 39%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 41%] Built target testSLNParse 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 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' [ 41%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 41%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 41%] 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' [ 41%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 41%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 43%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 43%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 43%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 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.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SAPLines(int, const RDKit::SubstanceGroup&)': /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:867, from /usr/include/c++/10/cstdio:42, from /usr/include/c++/10/ext/string_conversions.h:43, from /usr/include/c++/10/bits/basic_string.h:6535, from /usr/include/c++/10/string:55, from /usr/include/c++/10/bits/locale_classes.h:40, from /usr/include/c++/10/bits/ios_base.h:41, from /usr/include/c++/10/streambuf:41, from /usr/include/c++/10/bits/streambuf_iterator.h:35, from /usr/include/c++/10/iterator:66, from /usr/include/boost/iterator/iterator_traits.hpp:10, from /usr/include/boost/range/mutable_iterator.hpp:23, from /usr/include/boost/range/iterator.hpp:20, from /usr/include/boost/range/begin.hpp: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:67:35: note: '__builtin___snprintf_chk' output between 5 and 13 bytes into a destination of size 5 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 43%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 43%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 43%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 43%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 43%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 43%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 44%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 44%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 44%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 44%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 44%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 44%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 44%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 45%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 45%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 45%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 46%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 46%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 46%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 46%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 46%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 46%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 46%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 46%] 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' [ 46%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 46%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 46%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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' [ 46%] 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' [ 47%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 48%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 48%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 48%] 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' [ 48%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 48%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 48%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 48%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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' [ 48%] 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' [ 49%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 49%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 49%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 49%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 50%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 50%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 50%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 50%] Built target rdFingerprintGenerator 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' [ 51%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 51%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 51%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 51%] 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' [ 52%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 52%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 52%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 52%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 52%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 52%] 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= 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' [ 52%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 53%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 53%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 53%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 53%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 53%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 53%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 53%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 53%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 53%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 54%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 55%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 55%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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' [ 55%] Built target rdMolChemicalFeatures 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' [ 56%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 56%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 56%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 56%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] 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' [ 56%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 56%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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' [ 56%] Built target ForceField 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 /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, | ~~~~~~~~~~~~~^~~~ [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 56%] Built target rdMolCatalog 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 59%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 60%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/ConnectivityDescriptors.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/MQN.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/Descriptors/CMakeFiles/Descriptors.dir/Property.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/USRDescriptor.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/Descriptors && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 62%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 63%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 64%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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' [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 65%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 65%] 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' [ 65%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 66%] Built target graphmolTestsCatch 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 graphmolMolOpsTest 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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) { | ~~~~~^~~~~ [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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= 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target smiTestCatch 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 /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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 68%] Built target fileParsersTest1 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 69%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 69%] Built target testSequence 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 70%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 70%] 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' [ 71%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/ReactionFingerprints.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/ChemReactions && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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) { | ^~~~~~~~~~~~~ [ 72%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 72%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 72%] 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' [ 72%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 72%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 72%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 72%] 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' [ 72%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 72%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 72%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 74%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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' [ 74%] Built target rdfiltercatalog 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' [ 75%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 75%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 75%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 75%] 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' [ 75%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 75%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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' [ 75%] Built target ChemReactions 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 75%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 75%] 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= 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' [ 75%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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: /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:85:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] 85 | x = other.x; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:86:15: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] 86 | y = other.y; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] 87 | z = other.z; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributions(boost::python::api::object, boost::python::api::object)': /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:85:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] 85 | x = other.x; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:86:15: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] 86 | y = other.y; | ~~~~~~^ /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] 87 | z = other.z; | ~~~~~~^ [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 77%] 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' [ 77%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/MolDraw2DSVG.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolDraw2D && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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= 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 80%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 80%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 /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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/Stereo.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/AtomSymbolMatch.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/StructChecker && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/Metal.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 /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; | ^~~~~ [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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:263:29: warning: initialization of 'CROMol' {aka 'void *'} from 'Datum' {aka 'long unsigned int'} makes pointer from integer without a cast [-Wint-conversion] 263 | #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:263:29: warning: initialization of 'CROMol' {aka 'void *'} from 'Datum' {aka 'long unsigned int'} makes pointer from integer without a cast [-Wint-conversion] 263 | #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:263:29: warning: initialization of 'CROMol' {aka 'void *'} from 'Datum' {aka 'long unsigned int'} makes pointer from integer without a cast [-Wint-conversion] 263 | #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:263:29: warning: initialization of 'CROMol' {aka 'void *'} from 'Datum' {aka 'long unsigned int'} makes pointer from integer without a cast [-Wint-conversion] 263 | #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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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:275:16: warning: incompatible implicit declaration of built-in function 'floor' /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: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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/cc -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 84%] 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' [ 84%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 84%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 84%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 84%] 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' [ 84%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/Tautomer.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/Fragment.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 85%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 85%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 86%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 86%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 86%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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' [ 86%] 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' [ 86%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 86%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 86%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 86%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 87%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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' [ 87%] 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' [ 87%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 87%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 87%] 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= 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' [ 87%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 88%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 DistGeom 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 88%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 88%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 89%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 89%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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' [ 89%] Built target MolStandardize 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 91%] 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' [ 91%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 91%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 93%] Built target moldraw2DRxnTest1 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Built target rdMolDraw2D 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 94%] Built target moldraw2DTestCatch 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/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' [ 94%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 /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); | ^~~~~~~~~~ [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 95%] 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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' [ 95%] 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= 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' [ 95%] 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [ 96%] Built target rdRGroupDecomposition 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/Charge.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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/Fragment.cpp.o cd /builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 98%] 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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' [ 98%] 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' [ 98%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [ 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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 make[2]: Leaving directory '/builddir/build/BUILD/rdkit-Release_2019_03_3/python3' [100%] Built target testMMFFForceField 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' [100%] 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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' [100%] Built target rdMolStandardize 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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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/c++ -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/python3.8 -I/builddir/build/BUILD/rdkit-Release_2019_03_3/python3/Code -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 [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/c++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 -lpython3.8 -lboost_python38 -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/c++ -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/python3.8 -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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 [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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 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/c++ -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-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 ~/build/BUILD/rdkit-Release_2019_03_3/python3 ~/build/BUILD/rdkit-Release_2019_03_3 + popd + popd + RPM_EC=0 ~/build/BUILD/rdkit-Release_2019_03_3 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.cV3bFv + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64 ++ dirname /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.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-2019.03.3-8.fc32.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-2019.03.3-8.fc32.x86_64/usr/lib64/cmake/rdkit/rdkit-targets.cmake -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/cmake/rdkit/rdkit-targets-relwithdebinfo.cmake -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/cmake/rdkit/rdkit-config.cmake -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/cmake/rdkit/rdkit-config-version.cmake -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/rdBase.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/CTestTestfile.cmake -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/cmake_install.cmake -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Makefile -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/RDPaths.py -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/RDConfig.py -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/RDLogger.py -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/RDRandom.py -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/TestRunner.py -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/__init__.py -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/_py2_pickle.py -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/six.py -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/utils -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/utils/__init__.py -- Installing: 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/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDBoost.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDBoost.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDBoost.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDBoost.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/RDBoost/Wrap.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/RDBoost/PySequenceHolder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/RDBoost/list_indexing_suite.hpp -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/RDBoost/python.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/RDBoost/boost_numpy.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/RDBoost/python_streambuf.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/rdBase.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/rdBase.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so.1 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDataStructs.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDataStructs.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDataStructs.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDataStructs.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/base64.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/BitOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/BitVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/BitVects.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/BitVectUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/DatastructsException.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/DatastructsStreamOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/DiscreteDistMat.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/DiscreteValueVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/ExplicitBitVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/SparseBitVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/SparseIntVect.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/FPBReader.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataStructs/MultiFPBReader.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/DataStructs/cDataStructs.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/DataStructs/cDataStructs.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDGeometryLib.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Geometry/Grid3D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Geometry/GridUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Geometry/point.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Geometry/Transform2D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Geometry/Transform3D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Geometry/Transform.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Geometry/UniformGrid3D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Geometry/Utils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Geometry/rdGeometry.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Geometry/rdGeometry.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Numerics/Matrix.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Numerics/SquareMatrix.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Numerics/SymmMatrix.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Numerics/Vector.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitAlignment.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitAlignment.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitAlignment.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitAlignment.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Numerics/Alignment/AlignPoints.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Numerics/rdAlignment.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Numerics/rdAlignment.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitEigenSolvers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitEigenSolvers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitEigenSolvers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitEigenSolvers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Numerics/EigenSolvers/PowerEigenSolver.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitOptimizer.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitOptimizer.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitOptimizer.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitOptimizer.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Numerics/Optimizer/BFGSOpt.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceField.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceField.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceField.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceField.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/Contrib.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/ForceField.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/AngleBend.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/BondStretch.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/Contribs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/DistanceConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/AngleConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/TorsionConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/PositionConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/Nonbonded.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/Params.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/Inversion.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/UFF/TorsionAngle.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/AngleBend.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/BondStretch.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/StretchBend.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/OopBend.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/TorsionAngle.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/Nonbonded.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/Contribs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/DistanceConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/AngleConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/TorsionConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/PositionConstraint.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ForceField/MMFF/Params.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ForceField/rdForceField.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ForceField/rdForceField.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeometry.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeometry.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeometry.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeometry.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DistGeom/BoundsMatrix.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DistGeom/ChiralSet.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DistGeom/ChiralViolationContrib.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DistGeom/DistGeomUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DistGeom/DistViolationContrib.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DistGeom/FourthDimContrib.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DistGeom/TriangleSmooth.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/DistanceGeometry/DistGeom.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/DistanceGeometry/DistGeom.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitCatalogs.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitCatalogs.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitCatalogs.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitCatalogs.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Catalogs/CatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Catalogs/Catalog.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Catalogs/CatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitGraphMol.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitGraphMol.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitGraphMol.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitGraphMol.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Atom.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/atomic_data.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/AtomIterators.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Bond.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/BondIterators.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Canon.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Chirality.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Conformer.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/details.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/GraphMol.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolPickler.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/PeriodicTable.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/QueryAtom.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/QueryBond.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/QueryOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/RDKitBase.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/RDKitQueries.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Resonance.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/RingInfo.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Rings.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ROMol.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/RWMol.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SanitException.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SubstanceGroup.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/StereoGroup.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MonomerInfo.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/new_canon.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolBundle.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDepictor.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDepictor.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDepictor.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDepictor.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Depictor/DepictUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Depictor/EmbeddedFrag.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Depictor/RDDepictor.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdDepictor.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdDepictor.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSmilesParse.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSmilesParse.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSmilesParse.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSmilesParse.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SmilesParse/primes.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SmilesParse/SmartsWrite.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SmilesParse/SmilesParse.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SmilesParse/SmilesParseOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SmilesParse/SmilesWrite.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFileParsers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFileParsers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFileParsers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFileParsers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FileParsers/FileParsers.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FileParsers/FileParserUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FileParsers/MolFileStereochem.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FileParsers/MolSupplier.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FileParsers/MolWriters.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FileParsers/SequenceParsers.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FileParsers/SequenceWriters.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructMatch.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructMatch.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructMatch.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructMatch.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Substruct/SubstructMatch.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Substruct/SubstructUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemReactions.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemReactions.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemReactions.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemReactions.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/Reaction.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionParser.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionPickler.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionFingerprints.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/ReactionRunner.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/PreprocessRxn.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/SanitizeRxn.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/Enumerate.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/EnumerateBase.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/EnumerationPickler.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/EnumerationStrategyBase.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/CartesianProduct.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/RandomSample.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemReactions/RandomSampleAllBBs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdChemReactions.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdChemReactions.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemTransforms.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemTransforms.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemTransforms.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemTransforms.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemTransforms/ChemTransforms.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ChemTransforms/MolFragmenter.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubgraphs.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubgraphs.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubgraphs.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubgraphs.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Subgraphs/Subgraphs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Subgraphs/SubgraphUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFilterCatalog.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFilterCatalog.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFilterCatalog.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFilterCatalog.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FilterCatalog.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatcherBase.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FilterMatchers.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdfiltercatalog.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdfiltercatalog.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFragCatalog.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFragCatalog.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFragCatalog.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFragCatalog.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragCatGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragCatParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FragCatalog/FragFPGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdfragcatalog.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdfragcatalog.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDescriptors.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDescriptors.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDescriptors.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDescriptors.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/Crippen.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/Lipinski.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/MolDescriptors.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/MolSurf.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/ConnectivityDescriptors.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/MQN.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/RegisterDescriptor.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/Property.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/AUTOCORR2D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/Data3Ddescriptors.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/MolData3Ddescriptors.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Descriptors/USRDescriptor.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolDescriptors.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolDescriptors.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFingerprints.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFingerprints.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFingerprints.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFingerprints.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/AtomPairs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/Fingerprints.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/MorganFingerprints.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/MACCS.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/FingerprintGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/AtomPairGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/MorganGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/RDKitFPGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/TopologicalTorsionGenerator.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Fingerprints/FingerprintUtil.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdFingerprintGenerator.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdFingerprintGenerator.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitPartialCharges.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitPartialCharges.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitPartialCharges.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitPartialCharges.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/PartialCharges/GasteigerCharges.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/PartialCharges/GasteigerParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdPartialCharges.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdPartialCharges.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolTransforms.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolTransforms.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolTransforms.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolTransforms.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolTransforms/MolTransforms.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolTransforms.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolTransforms.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceFieldHelpers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/Builder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/UFF/UFF.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/Builder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/MMFF/MMFF.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdForceFieldHelpers.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdForceFieldHelpers.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeomHelpers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/DistGeomHelpers/Embedder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdDistGeom.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdDistGeom.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolAlign.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolAlign.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolAlign.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolAlign.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolAlign/AlignMolecules.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolAlign/O3AAlignMolecules.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolAlign.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolAlign.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolChemicalFeatures/FeatureParser.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolChemicalFeatures/MolChemicalFeature.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolChemicalFeatures.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolChemicalFeatures.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitShapeHelpers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitShapeHelpers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitShapeHelpers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitShapeHelpers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeEncoder.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ShapeHelpers/ShapeUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdShapeHelpers.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdShapeHelpers.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolCatalog.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolCatalog.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolCatalog.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolCatalog.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolCatalog/MolCatalog.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolCatalog/MolCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolCatalog.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolCatalog.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2D.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DSVG.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2Dwx.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DDetails.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolDraw2D.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolDraw2D.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolDraw2D.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolDraw2D.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolDraw2D/MolDraw2DCairo.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/Draw/rdMolDraw2D.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/Draw/rdMolDraw2D.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFMCS.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFMCS.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFMCS.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFMCS.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FMCS/FMCS.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FMCS/Graph.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FMCS/Seed.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FMCS/SeedSet.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FMCS/MatchTable.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FMCS/RingMatchTableSet.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FMCS/SubstructureCache.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FMCS/SubstructMatchCustom.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/FMCS/MaximumCommonSubgraph.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdFMCS.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdFMCS.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolHash.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolHash.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolHash.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolHash.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolHash/MolHash.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolHash.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMolHash.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMMPA.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMMPA.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMMPA.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMMPA.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MMPA/MMPA.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMMPA.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdMMPA.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitStructChecker.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitStructChecker.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitStructChecker.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitStructChecker.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/StructChecker/StructChecker.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/StructChecker/Utilites.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/StructChecker/Pattern.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/StructChecker/Stereo.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/StructChecker/StripSmallFragments.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/StructChecker/ReCharge.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/StructChecker/Tautomer.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdStructChecker.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdStructChecker.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitReducedGraphs.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitReducedGraphs.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitReducedGraphs.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitReducedGraphs.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/ReducedGraphs/ReducedGraphs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdReducedGraphs.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdReducedGraphs.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitTrajectory.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitTrajectory.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitTrajectory.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitTrajectory.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Trajectory/Snapshot.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/Trajectory/Trajectory.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructLibrary.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructLibrary.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructLibrary.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructLibrary.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrary.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdSubstructLibrary.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdSubstructLibrary.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRGroupDecomposition.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRGroupDecomposition.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRGroupDecomposition.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRGroupDecomposition.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/RGroupDecomposition/RGroupDecomp.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdRGroupDecomposition.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdRGroupDecomposition.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSLNParse.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSLNParse.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSLNParse.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSLNParse.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SLNParse/SLNAttribs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SLNParse/SLNParse.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/SLNParse/SLNParseOps.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdSLNParse.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdSLNParse.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdchem.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdchem.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdmolops.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdmolops.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdqueries.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdqueries.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdmolfiles.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdmolfiles.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdtrajectory.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdtrajectory.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolStandardize.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolStandardize.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolStandardize.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolStandardize.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/MolStandardize.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Metal.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Normalize.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Validate.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Charge.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Tautomer.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/Fragment.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/FragmentCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/AcidBaseCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TransformCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogEntry.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogParams.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/GraphMol/MolStandardize/TautomerCatalogUtils.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/MolStandardize/rdMolStandardize.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/MolStandardize/rdMolStandardize.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/AndQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/EqualityQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/GreaterEqualQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/GreaterQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/LessEqualQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/LessQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/OrQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/Query.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/QueryObjects.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/RangeQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/SetQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Query/XOrQuery.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/Features/Feature.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricFuncs.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/DataManip/MetricMatrixCalc/MetricMatrixCalc.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/DataManip/Metric/rdMetricMatrixCalc.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/DataManip/Metric/rdMetricMatrixCalc.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSimDivPickers.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSimDivPickers.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSimDivPickers.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSimDivPickers.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/SimDivPickers/DistPicker.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/SimDivPickers/HierarchicalClusterPicker.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/SimDivPickers/MaxMinPicker.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKithc.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKithc.so.1 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKithc.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/Cluster/Clustering.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/Cluster/Clustering.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitInfoTheory.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitInfoTheory.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitInfoTheory.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitInfoTheory.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/InfoTheory/rdInfoTheory.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/InfoTheory/rdInfoTheory.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/Data/cQuantize.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/Data/cQuantize.so" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1.2019.03.3 -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1 -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1.2019.03.3" to "" -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemicalFeatures.so -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ChemicalFeatures/ChemicalFeature.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/include/rdkit/ChemicalFeatures/FreeChemicalFeature.h -- Installing: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdChemicalFeatures.so -- Set runtime path of "/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdChemicalFeatures.so" to "" -- Up-to-date: /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/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-2019.03.3-8.fc32.x86_64/usr/lib64/pgsql/rdkit.so + install -D rdkit.control /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/share/pgsql/extension/rdkit.control + install -D rdkit--3.7.sql /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.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 + popd ~/build/BUILD/rdkit-Release_2019_03_3 + rm -r /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64//usr/share/RDKit + FMCS=/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/fmcs/fmcs + sed '1{\@^#!/usr/bin/python3@d}' /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/fmcs/fmcs.py + touch -r /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/fmcs/fmcs.py /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/fmcs/fmcs.new + mv /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/fmcs/fmcs.new /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/fmcs/fmcs.py + rm /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/fmcs/fmcs + /usr/lib/rpm/find-debuginfo.sh -j2 --strict-build-id -m -i --build-id-seed 2019.03.3-8.fc32 --unique-debug-suffix -2019.03.3-8.fc32.x86_64 --unique-debug-src-base rdkit-2019.03.3-8.fc32.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-2019.03.3-8.fc32.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitAlignment.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/RDStreams/libRDKitRDStreams.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitAlignment.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitCatalogs.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitCatalogs.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemReactions.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemReactions.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemTransforms.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemTransforms.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitChemicalFeatures.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDataStructs.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDataStructs.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDepictor.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDepictor.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDescriptors.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDescriptors.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeomHelpers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeometry.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitDistGeometry.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitEigenSolvers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitEigenSolvers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFMCS.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFMCS.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFileParsers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFileParsers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFilterCatalog.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFilterCatalog.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFingerprints.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFingerprints.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceField.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceField.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitForceFieldHelpers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFragCatalog.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitFragCatalog.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitGraphMol.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitGraphMol.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitInfoTheory.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitInfoTheory.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMMPA.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMMPA.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolAlign.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolAlign.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolCatalog.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolCatalog.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolChemicalFeatures.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolDraw2D.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolDraw2D.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolHash.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolHash.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolStandardize.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolStandardize.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolTransforms.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitMolTransforms.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitOptimizer.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitOptimizer.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitPartialCharges.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitPartialCharges.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDBoost.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDBoost.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDGeneral.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDGeneral.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDGeometryLib.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDInchiLib.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRDInchiLib.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRGroupDecomposition.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitRGroupDecomposition.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitReducedGraphs.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitReducedGraphs.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSLNParse.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSLNParse.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitShapeHelpers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitShapeHelpers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSimDivPickers.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSimDivPickers.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSmilesParse.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSmilesParse.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitStructChecker.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitStructChecker.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubgraphs.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubgraphs.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructLibrary.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructLibrary.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructMatch.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitSubstructMatch.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitTrajectory.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKitTrajectory.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/pgsql/rdkit.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKithc.so.1.2019.03.3 extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/pgsql/rdkit.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/libRDKithc.so.1.2019.03.3 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/Draw/rdMolDraw2D.so extracting debug info from 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debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdChemicalFeatures.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdDepictor.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdDepictor.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdDistGeom.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdDistGeom.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Chem/rdFMCS.so extracting debug info from 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extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/DistanceGeometry/DistGeom.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ForceField/rdForceField.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ForceField/rdForceField.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Geometry/rdGeometry.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Geometry/rdGeometry.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/Cluster/Clustering.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/Cluster/Clustering.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/Data/cQuantize.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/Data/cQuantize.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/InfoTheory/rdInfoTheory.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/ML/InfoTheory/rdInfoTheory.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Numerics/rdAlignment.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/Numerics/rdAlignment.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/SimDivFilters/rdSimDivPickers.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/rdBase.so extracting debug info from /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8/site-packages/rdkit/rdBase.so original debug info size: 590112kB, size after compression: 460720kB /usr/lib/rpm/sepdebugcrcfix: Updated 90 CRC32s, 0 CRC32s did match. 13485 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/redhat/brp-python-bytecompile /usr/bin/python 1 0 Bytecompiling .py files below /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib/debug/usr/lib64/python3.8 using /usr/bin/python3.8 Bytecompiling .py files below /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/lib64/python3.8 using /usr/bin/python3.8 + /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.wuPFmw + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + RPM_EC=0 ++ jobs -p + exit 0 Processing files: rdkit-2019.03.3-8.fc32.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.GqjRku + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + DOCDIR=/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/share/doc/rdkit + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/share/doc/rdkit + cp -pr ReleaseNotes.md /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/share/doc/rdkit + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.2dj3Lv + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + LICENSEDIR=/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/share/licenses/rdkit + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/share/licenses/rdkit + cp -pr license.txt /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.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 = 2019.03.3-8.fc32 rdkit(x86-64) = 2019.03.3-8.fc32 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.1.69.0()(64bit) libboost_python38.so.1.69.0()(64bit) libboost_serialization.so.1.69.0()(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_2.4)(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) 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) libpython3.8.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_1.3.2)(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_3.4.9)(64bit) rtld(GNU_HASH) Processing files: rdkit-devel-2019.03.3-8.fc32.x86_64 Provides: cmake(rdkit) = 1.2019.03.3 rdkit-devel = 2019.03.3-8.fc32 rdkit-devel(x86-64) = 2019.03.3-8.fc32 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-2019.03.3-8.fc32.noarch Processing files: python3-rdkit-2019.03.3-8.fc32.x86_64 Provides: python-rdkit = 2019.03.3-8.fc32 python3-rdkit = 2019.03.3-8.fc32 python3-rdkit(x86-64) = 2019.03.3-8.fc32 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_python38.so.1.69.0()(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_2.4)(64bit) libcairo.so.2()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(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) libpython3.8.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_3.4.9)(64bit) python(abi) = 3.8 rtld(GNU_HASH) Obsoletes: python-rdkit < 2019.03.3-8.fc32 Processing files: rdkit-postgresql-2019.03.3-8.fc32.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.YncE2v + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + DOCDIR=/builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/share/doc/rdkit-postgresql + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/share/doc/rdkit-postgresql + cp -pr python3/Code/PgSQL/rdkit/README /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64/usr/share/doc/rdkit-postgresql + RPM_EC=0 ++ jobs -p + exit 0 Provides: librdkit.so()(64bit) rdkit-postgresql = 2019.03.3-8.fc32 rdkit-postgresql(x86-64) = 2019.03.3-8.fc32 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_3.4)(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_3.4.9)(64bit) rtld(GNU_HASH) Processing files: rdkit-debugsource-2019.03.3-8.fc32.x86_64 Provides: rdkit-debugsource = 2019.03.3-8.fc32 rdkit-debugsource(x86-64) = 2019.03.3-8.fc32 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: rdkit-debuginfo-2019.03.3-8.fc32.x86_64 Provides: debuginfo(build-id) = 02c9efca3226cb96de471a4b980b6b148bf12371 debuginfo(build-id) = 08229efd79f225d68aa5065b61b8459aaf9190af debuginfo(build-id) = 0c17b43d3244031796ab844cb37766f2ee0a136e debuginfo(build-id) = 17e57646216876b3648fbf5f2f2fd111893beb61 debuginfo(build-id) = 2179a20ff9e13621f0623107fb26b08bd75c031c debuginfo(build-id) = 2946ad00661b74b0f9022d22f03b256f6dba8008 debuginfo(build-id) = 29618119f8941339419a94a6af0d4c099cdb606f debuginfo(build-id) = 2b61bcd846ffa9c7e22fe259c02bb02e8227ef69 debuginfo(build-id) = 3f20206460fec73ff68c456a520c21f167a176b2 debuginfo(build-id) = 434b402ba7afd6f9a10290bcad5c2e123ef7d785 debuginfo(build-id) = 44d49ba9f40a1f4fe3cc903029c61b485f55aeba debuginfo(build-id) = 4562b0f1a0dee85a3ace3c0446dbc54b46c3775a debuginfo(build-id) = 45a6e81331c6199ea71ae2c5dd354838f41fdd4e debuginfo(build-id) = 4da4f71d70b849d123c617f9b1bdee5cbff9bb85 debuginfo(build-id) = 4f2e39b8e9b02e3c8cc3a5265435c962c50a567b debuginfo(build-id) = 51c7a871f9a451303a1603db1fb7709d7f0dda7e debuginfo(build-id) = 532904de24cd664d7bad8b24f8d9139a0a63ba5c debuginfo(build-id) = 57a6af124f8c3bb47fa7cf18e1eed32634b39950 debuginfo(build-id) = 5c491a4ff42a9befec830f863720057edba597d0 debuginfo(build-id) = 6027a5caa5e266aba192d5a8286b198a7ca0f072 debuginfo(build-id) = 64d3df5ace22cb9523908c3456fc418caaa9c633 debuginfo(build-id) = 6cb6db3974c2c5eb4dfb14a9f43d76cad830b29e debuginfo(build-id) = 72e5da79bd5d5e4f8b4de5def0dd9fc9d6a1017b debuginfo(build-id) = 73900268730e8b24907ce539bc85975992d6a916 debuginfo(build-id) = 7524ba023fa74db473f4ce3a79177abf756dd7dd debuginfo(build-id) = 76d55917fc24601447c03bda340a9ecea5fabcf3 debuginfo(build-id) = 774ec0be46cf1016ba1e38e46d6b80d0a213da25 debuginfo(build-id) = 8050e4cdd5406cb7d183c122c20b9ad2d0626570 debuginfo(build-id) = 8283f3f10a4462c6b39e304bf7507727b884c412 debuginfo(build-id) = 838e872688b0ddc94d1bc1a4ea3832627c938d58 debuginfo(build-id) = 8b1eb673184595e8e4142891d23f0000e075e7b2 debuginfo(build-id) = 92295758ac7aaad08ce13d99bdc431914fdb31ba debuginfo(build-id) = 955779e2ad58bfdcbe2a658695ecdbaa3400fa41 debuginfo(build-id) = 998b515255cde08b4f349ac636682f17b4efadc7 debuginfo(build-id) = 99a3b67b4b76febbb63fab7ba363001c23a74222 debuginfo(build-id) = bde923826be54e2c2e29c5058d1994e3f552660c debuginfo(build-id) = c6350b8d5cc9860e758d6dcc56f6198e67cc8491 debuginfo(build-id) = db503c1c07ab5f3cab8b35a8a571a923300b2985 debuginfo(build-id) = db90f2bc4ecea382d00f46fd5fa42a2197ace5ea debuginfo(build-id) = e041b2e842376ca5bf8b051a97f1a26bd6035866 debuginfo(build-id) = ea7215ab1250d75e07973900513c59618a109e4c debuginfo(build-id) = ed64f3389d1e4758ea55085c87b61bdf3cb917c3 debuginfo(build-id) = edd46346ece1baee49ae9b0e1e078c603a422d1c debuginfo(build-id) = f1d6a9091eccc287b76e5c37b9205d3069342f67 debuginfo(build-id) = f3fadbfe3bc887798db6b4cbb36d7b02602346c1 debuginfo(build-id) = f40a23725cf8ccb74b0d177443f5e6f14d227720 debuginfo(build-id) = f4c0ec470b0e1191725f86fa180caab55a651ac3 rdkit-debuginfo = 2019.03.3-8.fc32 rdkit-debuginfo(x86-64) = 2019.03.3-8.fc32 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: rdkit-debugsource(x86-64) = 2019.03.3-8.fc32 Processing files: python3-rdkit-debuginfo-2019.03.3-8.fc32.x86_64 Provides: debuginfo(build-id) = 036adf702ecca4cf72ae6ddbf713c50920ddcc1b debuginfo(build-id) = 0a1d5571b0b3e9944a0b0a536e74f3db67a5e887 debuginfo(build-id) = 1032ac781ce96f1a41f87e45f1e21e3389f70ad2 debuginfo(build-id) = 1846baa26ef3760cbc426bb172dc0af131df19a4 debuginfo(build-id) = 1b5e953bd8409c15b09ee5a26cb79df51b261bd4 debuginfo(build-id) = 239e274c3cce263a6b1ffca88f584c25e91b626a debuginfo(build-id) = 284975ed13c4641956922967ec1bdc95416bfcb6 debuginfo(build-id) = 382f40fd62e116ee812cc37956e39e66ec900f66 debuginfo(build-id) = 41b6652eeeb270e112bc240e70d15554f2bd400f debuginfo(build-id) = 4d6dd94840ddb92ed3fd821938758bdfc7d6e41a debuginfo(build-id) = 4fbf3a862966ab365515de3df64ca1d3adbc558e debuginfo(build-id) = 59260577bb98bf6db4eea1ea2db84beb1f2a4a6e debuginfo(build-id) = 5fe748920a5c5c0d257ce726cb64a927b20ab544 debuginfo(build-id) = 611b7e2ad83cfd8e02eb8a9afb7055f3d7d7792c debuginfo(build-id) = 62887aff629d71615c218b32b2c8c890cef33c13 debuginfo(build-id) = 659a72f3387bb8cb7cf1a75a29c6f2753489f9dd debuginfo(build-id) = 6b6585e9c56b8b0240dcb6df7d3bb9ecdeb41060 debuginfo(build-id) = 6ddf7dcf39d0b86d1aa3dc9669b6d7d30ddfbc37 debuginfo(build-id) = 7752d3d954ca6bae0140116e156aff3aee710038 debuginfo(build-id) = 781a1343fbabb0a9b496f1cb27b40f34555e1df2 debuginfo(build-id) = 817cdc7056dd79702ef34dc3aefecc380b1c10fe debuginfo(build-id) = 8e4af08234884bf055dbf908ad1cdcb32a9566a1 debuginfo(build-id) = 91d881678c518534364e01ee0e30bd83e6a45d4e debuginfo(build-id) = 960ad0361ea2fa7cf6773e25a122c0bf1f15dacc debuginfo(build-id) = 991fb6d52875d7a9b58b235f2641671f5874b186 debuginfo(build-id) = 9acdbcf753e9db4235e9dd4faa3697a6dc2925d2 debuginfo(build-id) = 9ca200a22ab56ece5649f58f4dfb76d164daed62 debuginfo(build-id) = 9cc15034c22e18f12bfd8200fab7946d4c23152e debuginfo(build-id) = a3696aeff641d0d5526df7bc893f918caa5e887d debuginfo(build-id) = a54364a0cad8e4e7cf4b8bef6cfa699e20f0ad50 debuginfo(build-id) = b192ef9f961392b03f1b6748de3aabf890c502b2 debuginfo(build-id) = b249be0cb8ab3a74a68b1a6595d960032d782ad1 debuginfo(build-id) = baa53c77797e28826bf7282bd440c3677ad2d96b debuginfo(build-id) = bb50d3c7fb4169e905875f5df257312bffa1bc9d debuginfo(build-id) = bd93d1bd400ccdd16d1f8ffa87712747fa3a4c24 debuginfo(build-id) = c9f238c601696f4b3811a7451c82aee5cceb0fb3 debuginfo(build-id) = cdbea8303ee241b8d96280e10f3a4abe642e8594 debuginfo(build-id) = cfe6f8bce89f35180575c8eed3c4e502950fc40e debuginfo(build-id) = d42d588c47a5f20d875a5f961b6bd6b7676658b9 debuginfo(build-id) = e0d788ecf0ef009d8d72487b145686f9adcfa158 debuginfo(build-id) = ecadee43a4af51953fd0c9e9e91999212dd1c94a debuginfo(build-id) = f977b08b0ef80eac5923ee80ffd345bdc9536ea5 python3-rdkit-debuginfo = 2019.03.3-8.fc32 python3-rdkit-debuginfo(x86-64) = 2019.03.3-8.fc32 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: rdkit-debugsource(x86-64) = 2019.03.3-8.fc32 Processing files: rdkit-postgresql-debuginfo-2019.03.3-8.fc32.x86_64 Provides: debuginfo(build-id) = a44640b9661e9d4c95131e4e719ce736e0edc24d rdkit-postgresql-debuginfo = 2019.03.3-8.fc32 rdkit-postgresql-debuginfo(x86-64) = 2019.03.3-8.fc32 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: rdkit-debugsource(x86-64) = 2019.03.3-8.fc32 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64 Wrote: /builddir/build/RPMS/rdkit-devel-2019.03.3-8.fc32.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-doc-2019.03.3-8.fc32.noarch.rpm Wrote: /builddir/build/RPMS/rdkit-2019.03.3-8.fc32.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-postgresql-2019.03.3-8.fc32.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-debugsource-2019.03.3-8.fc32.x86_64.rpm Wrote: /builddir/build/RPMS/python3-rdkit-2019.03.3-8.fc32.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-debuginfo-2019.03.3-8.fc32.x86_64.rpm Wrote: /builddir/build/RPMS/rdkit-postgresql-debuginfo-2019.03.3-8.fc32.x86_64.rpm Wrote: /builddir/build/RPMS/python3-rdkit-debuginfo-2019.03.3-8.fc32.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.e65P6w + umask 022 + cd /builddir/build/BUILD + cd rdkit-Release_2019_03_3 + /usr/bin/rm -rf /builddir/build/BUILDROOT/rdkit-2019.03.3-8.fc32.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild rdkit-2019.03.3-8.fc32.src.rpm Finish: build phase for rdkit-2019.03.3-8.fc32.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-32-x86_64-1590825999.446553/root/var/log/dnf.rpm.log /var/lib/mock/fedora-32-x86_64-1590825999.446553/root/var/log/dnf.librepo.log /var/lib/mock/fedora-32-x86_64-1590825999.446553/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/rdkit-2019.03.3-8.fc32.src.rpm) Config(child) 51 minutes 47 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