Warning: Permanently added '2620:52:3:1:dead:beef:cafe:c119' (ED25519) to the list of known hosts. Running: /usr/bin/copr-rpmbuild --verbose --drop-resultdir --build-id 5928089 --chroot epel-9-x86_64 --detached Version: 0.64 PID: 5416 Logging PID: 5417 Task: {'appstream': False, 'background': False, 'build_id': 5928089, 'buildroot_pkgs': [], 'chroot': 'epel-9-x86_64', 'enable_net': False, 'fedora_review': False, 'git_hash': '16809b188cde724546062c0047c6e75fd900915a', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/tomasm/EPEL9-plus/pymol', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'pymol', 'package_version': '2.5.0-3.1.TMM.el9', 'project_dirname': 'EPEL9-plus', 'project_name': 'EPEL9-plus', 'project_owner': 'tomasm', 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/tomasm/EPEL9-plus/epel-9-x86_64/', 'id': 'copr_base', 'name': 'Copr repository'}], 'sandbox': 'tomasm/EPEL9-plus--tomasm', 'source_json': {}, 'source_type': None, 'submitter': 'tomasm', 'tags': [], 'task_id': '5928089-epel-9-x86_64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/tomasm/EPEL9-plus/pymol /var/lib/copr-rpmbuild/workspace/workdir-z5ahxu9w/pymol --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/tomasm/EPEL9-plus/pymol', '/var/lib/copr-rpmbuild/workspace/workdir-z5ahxu9w/pymol', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-z5ahxu9w/pymol'... Running: git checkout 16809b188cde724546062c0047c6e75fd900915a cmd: ['git', 'checkout', '16809b188cde724546062c0047c6e75fd900915a'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-z5ahxu9w/pymol rc: 0 stdout: stderr: Note: switching to '16809b188cde724546062c0047c6e75fd900915a'. 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 16809b1 automatic import of pymol Running: copr-distgit-client sources cmd: ['copr-distgit-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-z5ahxu9w/pymol rc: 0 stdout: stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD INFO: Reading stdout from command: git rev-parse HEAD INFO: Reading sources specification file: sources INFO: Downloading pymol-open-source-2.5.0.tar.gz INFO: Calling: curl -H Pragma: -o pymol-open-source-2.5.0.tar.gz --location --remote-time --show-error --fail https://copr-dist-git.fedorainfracloud.org/repo/pkgs/tomasm/EPEL9-plus/pymol/pymol-open-source-2.5.0.tar.gz/md5/1c2d43789dd5580958fd75672ecfd8e7/pymol-open-source-2.5.0.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated 100 9.9M 100 9.9M 0 0 47.8M 0 --:--:-- --:--:-- --:--:-- 48.0M INFO: Reading stdout from command: md5sum pymol-open-source-2.5.0.tar.gz INFO: Downloading pymol.png INFO: Calling: curl -H Pragma: -o pymol.png --location --remote-time --show-error --fail https://copr-dist-git.fedorainfracloud.org/repo/pkgs/tomasm/EPEL9-plus/pymol/pymol.png/md5/3bbd85dbd40f588f505ad988b6df2933/pymol.png % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 19466 100 19466 0 0 185k 0 --:--:-- --:--:-- --:--:-- 186k INFO: Reading stdout from command: md5sum pymol.png Running (timeout=18000): unbuffer mock --buildsrpm --spec /var/lib/copr-rpmbuild/workspace/workdir-z5ahxu9w/pymol/pymol.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-z5ahxu9w/pymol --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1684328434.275329 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.5 starting (python version = 3.11.0, NVR = mock-3.5-1.fc37)... Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-z5ahxu9w/pymol/pymol.spec) Config(rhel+epel-9-x86_64) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1684328434.275329/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 3.5 INFO: Mock Version: 3.5 Start(bootstrap): dnf install No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity Copr repository 1.2 MB/s | 194 kB 00:00 Red Hat Enterprise Linux - BaseOS 11 MB/s | 12 MB 00:01 Red Hat Enterprise Linux - AppStream 14 MB/s | 21 MB 00:01 Red Hat Enterprise Linux - CodeReady Linux Buil 3.3 MB/s | 5.6 MB 00:01 Extra Packages for Enterprise Linux 9 - x86_64 21 MB/s | 15 MB 00:00 Dependencies resolved. ========================================================================================= Package Arch Version Repo Size ========================================================================================= Installing: dnf noarch 4.14.0-5.el9_2 baseos 486 k dnf-plugins-core noarch 4.3.0-5.el9_2 baseos 42 k subscription-manager x86_64 1.29.33.1-1.el9_2 baseos 917 k Installing dependencies: acl x86_64 2.3.1-3.el9 baseos 77 k alternatives x86_64 1.20-2.el9 baseos 40 k audit-libs x86_64 3.0.7-103.el9 baseos 121 k basesystem noarch 11-13.el9 baseos 8.0 k bash x86_64 5.1.8-6.el9_1 baseos 1.7 M bzip2-libs x86_64 1.0.8-8.el9 baseos 42 k ca-certificates noarch 2022.2.54-90.2.el9_0 baseos 835 k coreutils x86_64 8.32-34.el9 baseos 1.2 M coreutils-common x86_64 8.32-34.el9 baseos 2.0 M cracklib x86_64 2.9.6-27.el9 baseos 99 k cracklib-dicts x86_64 2.9.6-27.el9 baseos 3.6 M crypto-policies noarch 20221215-1.git9a18988.el9 baseos 85 k curl x86_64 7.76.1-23.el9_2.1 baseos 300 k cyrus-sasl-lib x86_64 2.1.27-21.el9 baseos 774 k dbus x86_64 1:1.12.20-7.el9_1 baseos 8.0 k dbus-broker x86_64 28-7.el9 baseos 175 k dbus-common noarch 1:1.12.20-7.el9_1 baseos 18 k dbus-libs x86_64 1:1.12.20-7.el9_1 baseos 155 k dmidecode x86_64 1:3.3-7.el9 baseos 93 k dnf-data noarch 4.14.0-5.el9_2 baseos 44 k elfutils-default-yama-scope noarch 0.188-3.el9 baseos 14 k elfutils-libelf x86_64 0.188-3.el9 baseos 198 k elfutils-libs x86_64 0.188-3.el9 baseos 256 k expat x86_64 2.5.0-1.el9 baseos 120 k file-libs x86_64 5.39-12.el9 baseos 592 k filesystem x86_64 3.16-2.el9 baseos 4.7 M gawk x86_64 5.1.0-6.el9 baseos 1.0 M gdbm-libs x86_64 1:1.19-4.el9 baseos 56 k glib2 x86_64 2.68.4-6.el9 baseos 2.6 M glibc x86_64 2.34-60.el9 baseos 1.9 M glibc-common x86_64 2.34-60.el9 baseos 320 k glibc-minimal-langpack x86_64 2.34-60.el9 baseos 36 k gmp x86_64 1:6.2.0-10.el9 baseos 320 k gnupg2 x86_64 2.3.3-2.el9_0 baseos 2.5 M gnutls x86_64 3.7.6-20.el9_2 baseos 1.0 M gobject-introspection x86_64 1.68.0-11.el9 baseos 254 k gpgme x86_64 1.15.1-6.el9 baseos 211 k grep x86_64 3.6-5.el9 baseos 273 k gzip x86_64 1.12-1.el9 baseos 167 k ima-evm-utils x86_64 1.4-4.el9 baseos 67 k json-c x86_64 0.14-11.el9 baseos 45 k json-glib x86_64 1.6.6-1.el9 baseos 167 k keyutils-libs x86_64 1.6.3-1.el9 baseos 34 k kmod-libs x86_64 28-7.el9 baseos 66 k krb5-libs x86_64 1.20.1-8.el9 baseos 731 k libacl x86_64 2.3.1-3.el9 baseos 26 k libarchive x86_64 3.5.3-4.el9 baseos 392 k libassuan x86_64 2.5.5-3.el9 baseos 71 k libattr x86_64 2.5.1-3.el9 baseos 20 k libblkid x86_64 2.37.4-11.el9_2 baseos 109 k libbrotli x86_64 1.0.9-6.el9 baseos 317 k libcap x86_64 2.48-8.el9 baseos 76 k libcap-ng x86_64 0.8.2-7.el9 baseos 36 k libcom_err x86_64 1.46.5-3.el9 baseos 29 k libcomps x86_64 0.1.18-1.el9 baseos 80 k libcurl x86_64 7.76.1-23.el9_2.1 baseos 288 k libdb x86_64 5.3.28-53.el9 baseos 740 k libdnf x86_64 0.69.0-3.el9_2 baseos 664 k libdnf-plugin-subscription-manager x86_64 1.29.33.1-1.el9_2 baseos 86 k libeconf x86_64 0.4.1-2.el9 baseos 31 k libevent x86_64 2.1.12-6.el9 baseos 268 k libfdisk x86_64 2.37.4-11.el9_2 baseos 156 k libffi x86_64 3.4.2-7.el9 baseos 40 k libgcc x86_64 11.3.1-4.3.el9 baseos 114 k libgcrypt x86_64 1.10.0-10.el9_2 baseos 508 k libgomp x86_64 11.3.1-4.3.el9 baseos 288 k libgpg-error x86_64 1.42-5.el9 baseos 220 k libidn2 x86_64 2.3.0-7.el9 baseos 105 k libksba x86_64 1.5.1-6.el9_1 baseos 158 k libmodulemd x86_64 2.13.0-2.el9 baseos 236 k libmount x86_64 2.37.4-11.el9_2 baseos 136 k libnghttp2 x86_64 1.43.0-5.el9 baseos 76 k libnl3 x86_64 3.7.0-1.el9 baseos 354 k libpsl x86_64 0.21.1-5.el9 baseos 66 k libpwquality x86_64 1.4.4-8.el9 baseos 123 k librepo x86_64 1.14.5-1.el9 baseos 91 k libreport-filesystem noarch 2.15.2-6.el9 baseos 15 k librhsm x86_64 0.0.3-7.el9 baseos 37 k libseccomp x86_64 2.5.2-2.el9 baseos 74 k libselinux x86_64 3.5-1.el9 baseos 88 k libsemanage x86_64 3.5-1.el9 baseos 121 k libsepol x86_64 3.5-1.el9 baseos 317 k libsigsegv x86_64 2.13-4.el9 baseos 30 k libsmartcols x86_64 2.37.4-11.el9_2 baseos 65 k libsolv x86_64 0.7.22-4.el9 baseos 395 k libssh x86_64 0.10.4-8.el9 baseos 216 k libssh-config noarch 0.10.4-8.el9 baseos 11 k libstdc++ x86_64 11.3.1-4.3.el9 baseos 759 k libtasn1 x86_64 4.16.0-8.el9_1 baseos 77 k libunistring x86_64 0.9.10-15.el9 baseos 499 k libuser x86_64 0.63-12.el9 baseos 409 k libutempter x86_64 1.2.1-6.el9 baseos 30 k libuuid x86_64 2.37.4-11.el9_2 baseos 30 k libverto x86_64 0.3.2-3.el9 baseos 24 k libxcrypt x86_64 4.4.18-3.el9 baseos 120 k libxml2 x86_64 2.9.13-3.el9_1 baseos 752 k libyaml x86_64 0.2.5-7.el9 baseos 63 k libzstd x86_64 1.5.1-2.el9 baseos 332 k lua-libs x86_64 5.4.4-3.el9 baseos 218 k lz4-libs x86_64 1.9.3-5.el9 baseos 69 k mpfr x86_64 4.1.0-7.el9 baseos 329 k ncurses-base noarch 6.2-8.20210508.el9 baseos 100 k ncurses-libs x86_64 6.2-8.20210508.el9 baseos 334 k nettle x86_64 3.8-3.el9_0 baseos 552 k npth x86_64 1.6-8.el9 baseos 27 k openldap x86_64 2.6.2-3.el9 baseos 287 k openldap-compat x86_64 2.6.2-3.el9 baseos 21 k openssl x86_64 1:3.0.7-6.el9_2 baseos 1.2 M openssl-libs x86_64 1:3.0.7-6.el9_2 baseos 2.2 M p11-kit x86_64 0.24.1-2.el9 baseos 387 k p11-kit-trust x86_64 0.24.1-2.el9 baseos 148 k pam x86_64 1.5.1-14.el9 baseos 625 k passwd x86_64 0.80-12.el9 baseos 126 k pcre x86_64 8.44-3.el9.3 baseos 202 k pcre2 x86_64 10.40-2.el9 baseos 239 k pcre2-syntax noarch 10.40-2.el9 baseos 147 k popt x86_64 1.18-8.el9 baseos 69 k publicsuffix-list-dafsa noarch 20210518-3.el9 baseos 59 k python3 x86_64 3.9.16-1.el9 baseos 31 k python3-chardet noarch 4.0.0-5.el9 baseos 243 k python3-cloud-what x86_64 1.29.33.1-1.el9_2 baseos 103 k python3-dateutil noarch 1:2.8.1-6.el9 baseos 306 k python3-dbus x86_64 1.2.18-2.el9 baseos 148 k python3-decorator noarch 4.4.2-6.el9 baseos 31 k python3-dnf noarch 4.14.0-5.el9_2 baseos 467 k python3-dnf-plugins-core noarch 4.3.0-5.el9_2 baseos 267 k python3-ethtool x86_64 0.15-2.el9 baseos 45 k python3-gobject-base x86_64 3.40.1-6.el9 baseos 187 k python3-gobject-base-noarch noarch 3.40.1-6.el9 baseos 165 k python3-gpg x86_64 1.15.1-6.el9 baseos 285 k python3-hawkey x86_64 0.69.0-3.el9_2 baseos 107 k python3-idna noarch 2.10-7.el9 baseos 101 k python3-iniparse noarch 0.4-45.el9 baseos 51 k python3-inotify noarch 0.9.6-25.el9 baseos 56 k python3-libcomps x86_64 0.1.18-1.el9 baseos 52 k python3-libdnf x86_64 0.69.0-3.el9_2 baseos 784 k python3-librepo x86_64 1.14.5-1.el9 baseos 52 k python3-libs x86_64 3.9.16-1.el9 baseos 7.8 M python3-pip-wheel noarch 21.2.3-6.el9 baseos 1.1 M python3-pysocks noarch 1.7.1-12.el9 baseos 38 k python3-requests noarch 2.25.1-6.el9 baseos 130 k python3-rpm x86_64 4.16.1.3-22.el9 baseos 70 k python3-setuptools noarch 53.0.0-12.el9 baseos 948 k python3-setuptools-wheel noarch 53.0.0-12.el9 baseos 470 k python3-six noarch 1.15.0-9.el9 baseos 40 k python3-subscription-manager-rhsm x86_64 1.29.33.1-1.el9_2 baseos 187 k python3-systemd x86_64 234-18.el9 baseos 94 k python3-urllib3 noarch 1.26.5-3.el9 baseos 220 k readline x86_64 8.1-4.el9 baseos 215 k redhat-release x86_64 9.2-0.13.el9 baseos 46 k rpm x86_64 4.16.1.3-22.el9 baseos 542 k rpm-build-libs x86_64 4.16.1.3-22.el9 baseos 91 k rpm-libs x86_64 4.16.1.3-22.el9 baseos 309 k rpm-sign-libs x86_64 4.16.1.3-22.el9 baseos 23 k sed x86_64 4.8-9.el9 baseos 309 k setup noarch 2.13.7-9.el9 baseos 150 k shadow-utils x86_64 2:4.9-6.el9 baseos 1.2 M sqlite-libs x86_64 3.34.1-6.el9_1 baseos 622 k subscription-manager-rhsm-certificates noarch 20220623-1.el9 baseos 22 k systemd x86_64 252-13.el9_2 baseos 4.1 M systemd-libs x86_64 252-13.el9_2 baseos 652 k systemd-pam x86_64 252-13.el9_2 baseos 258 k systemd-rpm-macros noarch 252-13.el9_2 baseos 46 k tpm2-tss x86_64 3.0.3-8.el9 baseos 580 k tzdata noarch 2023c-1.el9 baseos 845 k usermode x86_64 1.114-4.el9 baseos 194 k util-linux x86_64 2.37.4-11.el9_2 baseos 2.3 M util-linux-core x86_64 2.37.4-11.el9_2 baseos 464 k virt-what x86_64 1.25-3.el9 baseos 36 k which x86_64 2.21-28.el9 baseos 45 k xz-libs x86_64 5.2.5-8.el9_0 baseos 94 k zlib x86_64 1.2.11-39.el9 baseos 94 k Transaction Summary ========================================================================================= Install 175 Packages Total download size: 75 M Installed size: 235 M Downloading Packages: (1/175): libseccomp-2.5.2-2.el9.x86_64.rpm 331 kB/s | 74 kB 00:00 (2/175): libpwquality-1.4.4-8.el9.x86_64.rpm 448 kB/s | 123 kB 00:00 (3/175): json-glib-1.6.6-1.el9.x86_64.rpm 486 kB/s | 167 kB 00:00 (4/175): libutempter-1.2.1-6.el9.x86_64.rpm 140 kB/s | 30 kB 00:00 (5/175): libmodulemd-2.13.0-2.el9.x86_64.rpm 856 kB/s | 236 kB 00:00 (6/175): python3-iniparse-0.4-45.el9.noarch.rpm 482 kB/s | 51 kB 00:00 (7/175): lz4-libs-1.9.3-5.el9.x86_64.rpm 748 kB/s | 69 kB 00:00 (8/175): python3-ethtool-0.15-2.el9.x86_64.rpm 171 kB/s | 45 kB 00:00 (9/175): libassuan-2.5.5-3.el9.x86_64.rpm 933 kB/s | 71 kB 00:00 (10/175): python3-decorator-4.4.2-6.el9.noarch. 290 kB/s | 31 kB 00:00 (11/175): libcap-2.48-8.el9.x86_64.rpm 571 kB/s | 76 kB 00:00 (12/175): npth-1.6-8.el9.x86_64.rpm 256 kB/s | 27 kB 00:00 (13/175): libacl-2.3.1-3.el9.x86_64.rpm 330 kB/s | 26 kB 00:00 (14/175): python3-urllib3-1.26.5-3.el9.noarch.r 1.7 MB/s | 220 kB 00:00 (15/175): python3-inotify-0.9.6-25.el9.noarch.r 799 kB/s | 56 kB 00:00 (16/175): python3-gpg-1.15.1-6.el9.x86_64.rpm 2.2 MB/s | 285 kB 00:00 (17/175): libcap-ng-0.8.2-7.el9.x86_64.rpm 322 kB/s | 36 kB 00:00 (18/175): json-c-0.14-11.el9.x86_64.rpm 505 kB/s | 45 kB 00:00 (19/175): libnghttp2-1.43.0-5.el9.x86_64.rpm 633 kB/s | 76 kB 00:00 (20/175): kmod-libs-28-7.el9.x86_64.rpm 318 kB/s | 66 kB 00:00 (21/175): python3-dbus-1.2.18-2.el9.x86_64.rpm 795 kB/s | 148 kB 00:00 (22/175): python3-idna-2.10-7.el9.noarch.rpm 1.3 MB/s | 101 kB 00:00 (23/175): filesystem-3.16-2.el9.x86_64.rpm 12 MB/s | 4.7 MB 00:00 (24/175): libreport-filesystem-2.15.2-6.el9.noa 245 kB/s | 15 kB 00:00 (25/175): sed-4.8-9.el9.x86_64.rpm 4.4 MB/s | 309 kB 00:00 (26/175): libcomps-0.1.18-1.el9.x86_64.rpm 547 kB/s | 80 kB 00:00 (27/175): pcre-8.44-3.el9.3.x86_64.rpm 492 kB/s | 202 kB 00:00 (28/175): python3-libcomps-0.1.18-1.el9.x86_64. 585 kB/s | 52 kB 00:00 (29/175): ncurses-libs-6.2-8.20210508.el9.x86_6 1.2 MB/s | 334 kB 00:00 (30/175): libunistring-0.9.10-15.el9.x86_64.rpm 6.3 MB/s | 499 kB 00:00 (31/175): usermode-1.114-4.el9.x86_64.rpm 2.3 MB/s | 194 kB 00:00 (32/175): grep-3.6-5.el9.x86_64.rpm 1.4 MB/s | 273 kB 00:00 (33/175): basesystem-11-13.el9.noarch.rpm 45 kB/s | 8.0 kB 00:00 (34/175): libbrotli-1.0.9-6.el9.x86_64.rpm 4.8 MB/s | 317 kB 00:00 (35/175): libxcrypt-4.4.18-3.el9.x86_64.rpm 1.6 MB/s | 120 kB 00:00 (36/175): ncurses-base-6.2-8.20210508.el9.noarc 857 kB/s | 100 kB 00:00 (37/175): libverto-0.3.2-3.el9.x86_64.rpm 206 kB/s | 24 kB 00:00 (38/175): acl-2.3.1-3.el9.x86_64.rpm 628 kB/s | 77 kB 00:00 (39/175): mpfr-4.1.0-7.el9.x86_64.rpm 2.3 MB/s | 329 kB 00:00 (40/175): libyaml-0.2.5-7.el9.x86_64.rpm 411 kB/s | 63 kB 00:00 (41/175): readline-8.1-4.el9.x86_64.rpm 2.2 MB/s | 215 kB 00:00 (42/175): cracklib-2.9.6-27.el9.x86_64.rpm 922 kB/s | 99 kB 00:00 (43/175): popt-1.18-8.el9.x86_64.rpm 347 kB/s | 69 kB 00:00 (44/175): gpgme-1.15.1-6.el9.x86_64.rpm 2.1 MB/s | 211 kB 00:00 (45/175): libidn2-2.3.0-7.el9.x86_64.rpm 563 kB/s | 105 kB 00:00 (46/175): passwd-0.80-12.el9.x86_64.rpm 710 kB/s | 126 kB 00:00 (47/175): python3-requests-2.25.1-6.el9.noarch. 861 kB/s | 130 kB 00:00 (48/175): libgpg-error-1.42-5.el9.x86_64.rpm 1.8 MB/s | 220 kB 00:00 (49/175): libevent-2.1.12-6.el9.x86_64.rpm 670 kB/s | 268 kB 00:00 (50/175): libffi-3.4.2-7.el9.x86_64.rpm 211 kB/s | 40 kB 00:00 (51/175): 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(release key 2) " Fingerprint: 567E 347A D004 4ADE 55BA 8A5F 199E 2F91 FD43 1D51 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Importing GPG key 0x5A6340B3: Userid : "Red Hat, Inc. (auxiliary key 3) " Fingerprint: 7E46 2425 8C40 6535 D56D 6F13 5054 E4A4 5A63 40B3 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.16-2.el9.x86_64 1/1 Preparing : 1/1 Installing : libgcc-11.3.1-4.3.el9.x86_64 1/175 Running scriptlet: libgcc-11.3.1-4.3.el9.x86_64 1/175 Installing : crypto-policies-20221215-1.git9a18988.el9.noarch 2/175 Running scriptlet: crypto-policies-20221215-1.git9a18988.el9.noarch 2/175 Installing : tzdata-2023c-1.el9.noarch 3/175 Installing : subscription-manager-rhsm-certificates-20220623- 4/175 Installing : coreutils-common-8.32-34.el9.x86_64 5/175 Installing : libssh-config-0.10.4-8.el9.noarch 6/175 Installing : redhat-release-9.2-0.13.el9.x86_64 7/175 Installing : setup-2.13.7-9.el9.noarch 8/175 warning: /etc/hosts created as /etc/hosts.rpmnew Running scriptlet: setup-2.13.7-9.el9.noarch 8/175 Installing : filesystem-3.16-2.el9.x86_64 9/175 Installing : basesystem-11-13.el9.noarch 10/175 Installing : python3-setuptools-wheel-53.0.0-12.el9.noarch 11/175 Installing : pcre2-syntax-10.40-2.el9.noarch 12/175 Installing : 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libgpg-error-1.42-5.el9.x86_64 29/175 Installing : libffi-3.4.2-7.el9.x86_64 30/175 Installing : p11-kit-0.24.1-2.el9.x86_64 31/175 Installing : libxml2-2.9.13-3.el9_1.x86_64 32/175 Installing : readline-8.1-4.el9.x86_64 33/175 Installing : libsmartcols-2.37.4-11.el9_2.x86_64 34/175 Installing : libgcrypt-1.10.0-10.el9_2.x86_64 35/175 Installing : lz4-libs-1.9.3-5.el9.x86_64 36/175 Installing : libcap-ng-0.8.2-7.el9.x86_64 37/175 Installing : audit-libs-3.0.7-103.el9.x86_64 38/175 Installing : json-c-0.14-11.el9.x86_64 39/175 Installing : libunistring-0.9.10-15.el9.x86_64 40/175 Installing : libidn2-2.3.0-7.el9.x86_64 41/175 Installing : dmidecode-1:3.3-7.el9.x86_64 42/175 Installing : gmp-1:6.2.0-10.el9.x86_64 43/175 Installing : libattr-2.5.1-3.el9.x86_64 44/175 Installing : libacl-2.3.1-3.el9.x86_64 45/175 Installing : libcom_err-1.46.5-3.el9.x86_64 46/175 Installing : expat-2.5.0-1.el9.x86_64 47/175 Installing : libstdc++-11.3.1-4.3.el9.x86_64 48/175 Installing : lua-libs-5.4.4-3.el9.x86_64 49/175 Installing : libassuan-2.5.5-3.el9.x86_64 50/175 Installing : file-libs-5.39-12.el9.x86_64 51/175 Installing : elfutils-libelf-0.188-3.el9.x86_64 52/175 Installing : pcre-8.44-3.el9.3.x86_64 53/175 Installing : libsigsegv-2.13-4.el9.x86_64 54/175 Installing : grep-3.6-5.el9.x86_64 55/175 Installing : gdbm-libs-1:1.19-4.el9.x86_64 56/175 Installing : pcre2-10.40-2.el9.x86_64 57/175 Installing : libtasn1-4.16.0-8.el9_1.x86_64 58/175 Installing : keyutils-libs-1.6.3-1.el9.x86_64 59/175 Installing : libsepol-3.5-1.el9.x86_64 60/175 Installing : libselinux-3.5-1.el9.x86_64 61/175 Installing : sed-4.8-9.el9.x86_64 62/175 Installing : libsemanage-3.5-1.el9.x86_64 63/175 Installing : shadow-utils-2:4.9-6.el9.x86_64 64/175 Running scriptlet: libutempter-1.2.1-6.el9.x86_64 65/175 Installing : libutempter-1.2.1-6.el9.x86_64 65/175 Installing : libcomps-0.1.18-1.el9.x86_64 66/175 Installing : acl-2.3.1-3.el9.x86_64 67/175 Installing : mpfr-4.1.0-7.el9.x86_64 68/175 Installing : gawk-5.1.0-6.el9.x86_64 69/175 Installing : libpsl-0.21.1-5.el9.x86_64 70/175 Installing : libksba-1.5.1-6.el9_1.x86_64 71/175 Installing : systemd-rpm-macros-252-13.el9_2.noarch 72/175 Installing : libseccomp-2.5.2-2.el9.x86_64 73/175 Installing : npth-1.6-8.el9.x86_64 74/175 Installing : libnghttp2-1.43.0-5.el9.x86_64 75/175 Installing : libbrotli-1.0.9-6.el9.x86_64 76/175 Installing : libverto-0.3.2-3.el9.x86_64 77/175 Installing : libyaml-0.2.5-7.el9.x86_64 78/175 Installing : libdb-5.3.28-53.el9.x86_64 79/175 Installing : libeconf-0.4.1-2.el9.x86_64 80/175 Installing : alternatives-1.20-2.el9.x86_64 81/175 Installing : p11-kit-trust-0.24.1-2.el9.x86_64 82/175 Running scriptlet: p11-kit-trust-0.24.1-2.el9.x86_64 82/175 Installing : openssl-libs-1:3.0.7-6.el9_2.x86_64 83/175 Installing : coreutils-8.32-34.el9.x86_64 84/175 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 85/175 Installing : ca-certificates-2022.2.54-90.2.el9_0.noarch 85/175 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 85/175 Installing : systemd-libs-252-13.el9_2.x86_64 86/175 Running scriptlet: systemd-libs-252-13.el9_2.x86_64 86/175 Installing : libblkid-2.37.4-11.el9_2.x86_64 87/175 Running scriptlet: libblkid-2.37.4-11.el9_2.x86_64 87/175 Installing : libmount-2.37.4-11.el9_2.x86_64 88/175 Installing : krb5-libs-1.20.1-8.el9.x86_64 89/175 Installing : libfdisk-2.37.4-11.el9_2.x86_64 90/175 Installing : cyrus-sasl-lib-2.1.27-21.el9.x86_64 91/175 Installing : libssh-0.10.4-8.el9.x86_64 92/175 Installing : util-linux-core-2.37.4-11.el9_2.x86_64 93/175 Running scriptlet: util-linux-core-2.37.4-11.el9_2.x86_64 93/175 Installing : dbus-libs-1:1.12.20-7.el9_1.x86_64 94/175 Installing : python3-pip-wheel-21.2.3-6.el9.noarch 95/175 Installing : python3-3.9.16-1.el9.x86_64 96/175 Installing : python3-libs-3.9.16-1.el9.x86_64 97/175 Installing : python3-six-1.15.0-9.el9.noarch 98/175 Installing : python3-dateutil-1:2.8.1-6.el9.noarch 99/175 Installing : python3-iniparse-0.4-45.el9.noarch 100/175 Installing : python3-idna-2.10-7.el9.noarch 101/175 Installing : python3-setuptools-53.0.0-12.el9.noarch 102/175 Installing : python3-inotify-0.9.6-25.el9.noarch 103/175 Installing : python3-libcomps-0.1.18-1.el9.x86_64 104/175 Installing : python3-decorator-4.4.2-6.el9.noarch 105/175 Installing : python3-chardet-4.0.0-5.el9.noarch 106/175 Installing : python3-pysocks-1.7.1-12.el9.noarch 107/175 Installing : python3-urllib3-1.26.5-3.el9.noarch 108/175 Installing : python3-requests-2.25.1-6.el9.noarch 109/175 Installing : python3-cloud-what-1.29.33.1-1.el9_2.x86_64 110/175 Installing : python3-systemd-234-18.el9.x86_64 111/175 Installing : gzip-1.12-1.el9.x86_64 112/175 Installing : cracklib-2.9.6-27.el9.x86_64 113/175 Installing : cracklib-dicts-2.9.6-27.el9.x86_64 114/175 Installing : openssl-1:3.0.7-6.el9_2.x86_64 115/175 Installing : pam-1.5.1-14.el9.x86_64 116/175 Installing : libpwquality-1.4.4-8.el9.x86_64 117/175 Installing : util-linux-2.37.4-11.el9_2.x86_64 118/175 Installing : kmod-libs-28-7.el9.x86_64 119/175 Installing : dbus-1:1.12.20-7.el9_1.x86_64 120/175 Installing : systemd-pam-252-13.el9_2.x86_64 121/175 Running scriptlet: systemd-252-13.el9_2.x86_64 122/175 Installing : systemd-252-13.el9_2.x86_64 122/175 Running scriptlet: systemd-252-13.el9_2.x86_64 122/175 Installing : dbus-common-1:1.12.20-7.el9_1.noarch 123/175 Running scriptlet: dbus-common-1:1.12.20-7.el9_1.noarch 123/175 Created symlink /etc/systemd/system/sockets.target.wants/dbus.socket → /usr/lib/systemd/system/dbus.socket. Created symlink /etc/systemd/user/sockets.target.wants/dbus.socket → /usr/lib/systemd/user/dbus.socket. Running scriptlet: dbus-broker-28-7.el9.x86_64 124/175 Installing : dbus-broker-28-7.el9.x86_64 124/175 Running scriptlet: dbus-broker-28-7.el9.x86_64 124/175 Created symlink /etc/systemd/system/dbus.service → /usr/lib/systemd/system/dbus-broker.service. Created symlink /etc/systemd/user/dbus.service → /usr/lib/systemd/user/dbus-broker.service. Installing : elfutils-default-yama-scope-0.188-3.el9.noarch 125/175 Running scriptlet: elfutils-default-yama-scope-0.188-3.el9.noarch 125/175 Installing : elfutils-libs-0.188-3.el9.x86_64 126/175 Installing : libevent-2.1.12-6.el9.x86_64 127/175 Installing : openldap-2.6.2-3.el9.x86_64 128/175 Installing : libcurl-7.76.1-23.el9_2.1.x86_64 129/175 Running scriptlet: tpm2-tss-3.0.3-8.el9.x86_64 130/175 Installing : tpm2-tss-3.0.3-8.el9.x86_64 130/175 Installing : ima-evm-utils-1.4-4.el9.x86_64 131/175 Installing : curl-7.76.1-23.el9_2.1.x86_64 132/175 Installing : openldap-compat-2.6.2-3.el9.x86_64 133/175 Installing : libarchive-3.5.3-4.el9.x86_64 134/175 Installing : rpm-libs-4.16.1.3-22.el9.x86_64 135/175 Installing : rpm-4.16.1.3-22.el9.x86_64 136/175 Installing : libsolv-0.7.22-4.el9.x86_64 137/175 Installing : nettle-3.8-3.el9_0.x86_64 138/175 Installing : gnutls-3.7.6-20.el9_2.x86_64 139/175 Installing : glib2-2.68.4-6.el9.x86_64 140/175 Installing : python3-dbus-1.2.18-2.el9.x86_64 141/175 Installing : libmodulemd-2.13.0-2.el9.x86_64 142/175 Installing : libuser-0.63-12.el9.x86_64 143/175 Installing : gnupg2-2.3.3-2.el9_0.x86_64 144/175 Installing : gpgme-1.15.1-6.el9.x86_64 145/175 Installing : librepo-1.14.5-1.el9.x86_64 146/175 Installing : python3-librepo-1.14.5-1.el9.x86_64 147/175 Installing : python3-gpg-1.15.1-6.el9.x86_64 148/175 Installing : rpm-sign-libs-4.16.1.3-22.el9.x86_64 149/175 Installing : passwd-0.80-12.el9.x86_64 150/175 Installing : usermode-1.114-4.el9.x86_64 151/175 Installing : json-glib-1.6.6-1.el9.x86_64 152/175 Installing : librhsm-0.0.3-7.el9.x86_64 153/175 Installing : libdnf-0.69.0-3.el9_2.x86_64 154/175 Installing : python3-libdnf-0.69.0-3.el9_2.x86_64 155/175 Installing : python3-hawkey-0.69.0-3.el9_2.x86_64 156/175 Installing : gobject-introspection-1.68.0-11.el9.x86_64 157/175 Installing : python3-gobject-base-noarch-3.40.1-6.el9.noarch 158/175 Installing : python3-gobject-base-3.40.1-6.el9.x86_64 159/175 Installing : which-2.21-28.el9.x86_64 160/175 Installing : virt-what-1.25-3.el9.x86_64 161/175 Installing : libnl3-3.7.0-1.el9.x86_64 162/175 Installing : python3-ethtool-0.15-2.el9.x86_64 163/175 Installing : libgomp-11.3.1-4.3.el9.x86_64 164/175 Installing : rpm-build-libs-4.16.1.3-22.el9.x86_64 165/175 Installing : python3-rpm-4.16.1.3-22.el9.x86_64 166/175 Installing : python3-subscription-manager-rhsm-1.29.33.1-1.el 167/175 Installing : libreport-filesystem-2.15.2-6.el9.noarch 168/175 Installing : dnf-data-4.14.0-5.el9_2.noarch 169/175 warning: /etc/dnf/dnf.conf created as /etc/dnf/dnf.conf.rpmnew Installing : python3-dnf-4.14.0-5.el9_2.noarch 170/175 Installing : dnf-4.14.0-5.el9_2.noarch 171/175 Running scriptlet: dnf-4.14.0-5.el9_2.noarch 171/175 Created symlink /etc/systemd/system/timers.target.wants/dnf-makecache.timer → /usr/lib/systemd/system/dnf-makecache.timer. Installing : python3-dnf-plugins-core-4.3.0-5.el9_2.noarch 172/175 Installing : libdnf-plugin-subscription-manager-1.29.33.1-1.e 173/175 Running scriptlet: subscription-manager-1.29.33.1-1.el9_2.x86_64 174/175 Installing : subscription-manager-1.29.33.1-1.el9_2.x86_64 174/175 Running scriptlet: subscription-manager-1.29.33.1-1.el9_2.x86_64 174/175 Created symlink /etc/systemd/system/multi-user.target.wants/rhsmcertd.service → /usr/lib/systemd/system/rhsmcertd.service. /var/tmp/rpm-tmp.r5qexr: line 17: find: command not found /var/tmp/rpm-tmp.r5qexr: line 17: xargs: command not found Installing : dnf-plugins-core-4.3.0-5.el9_2.noarch 175/175 Running scriptlet: filesystem-3.16-2.el9.x86_64 175/175 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 175/175 Running scriptlet: rpm-4.16.1.3-22.el9.x86_64 175/175 Running scriptlet: subscription-manager-1.29.33.1-1.el9_2.x86_64 175/175 Running scriptlet: dnf-plugins-core-4.3.0-5.el9_2.noarch 175/175 Verifying : json-glib-1.6.6-1.el9.x86_64 1/175 Verifying : libseccomp-2.5.2-2.el9.x86_64 2/175 Verifying : libpwquality-1.4.4-8.el9.x86_64 3/175 Verifying : libmodulemd-2.13.0-2.el9.x86_64 4/175 Verifying : libutempter-1.2.1-6.el9.x86_64 5/175 Verifying : python3-ethtool-0.15-2.el9.x86_64 6/175 Verifying : python3-iniparse-0.4-45.el9.noarch 7/175 Verifying : lz4-libs-1.9.3-5.el9.x86_64 8/175 Verifying : libassuan-2.5.5-3.el9.x86_64 9/175 Verifying : python3-decorator-4.4.2-6.el9.noarch 10/175 Verifying : libcap-2.48-8.el9.x86_64 11/175 Verifying : npth-1.6-8.el9.x86_64 12/175 Verifying : python3-urllib3-1.26.5-3.el9.noarch 13/175 Verifying : libacl-2.3.1-3.el9.x86_64 14/175 Verifying : python3-gpg-1.15.1-6.el9.x86_64 15/175 Verifying : libcap-ng-0.8.2-7.el9.x86_64 16/175 Verifying : python3-inotify-0.9.6-25.el9.noarch 17/175 Verifying : libnghttp2-1.43.0-5.el9.x86_64 18/175 Verifying : json-c-0.14-11.el9.x86_64 19/175 Verifying : filesystem-3.16-2.el9.x86_64 20/175 Verifying : kmod-libs-28-7.el9.x86_64 21/175 Verifying : python3-dbus-1.2.18-2.el9.x86_64 22/175 Verifying : pcre-8.44-3.el9.3.x86_64 23/175 Verifying : python3-idna-2.10-7.el9.noarch 24/175 Verifying : libreport-filesystem-2.15.2-6.el9.noarch 25/175 Verifying : sed-4.8-9.el9.x86_64 26/175 Verifying : ncurses-libs-6.2-8.20210508.el9.x86_64 27/175 Verifying : libcomps-0.1.18-1.el9.x86_64 28/175 Verifying : python3-libcomps-0.1.18-1.el9.x86_64 29/175 Verifying : grep-3.6-5.el9.x86_64 30/175 Verifying : libunistring-0.9.10-15.el9.x86_64 31/175 Verifying : basesystem-11-13.el9.noarch 32/175 Verifying : usermode-1.114-4.el9.x86_64 33/175 Verifying : libbrotli-1.0.9-6.el9.x86_64 34/175 Verifying : libverto-0.3.2-3.el9.x86_64 35/175 Verifying : ncurses-base-6.2-8.20210508.el9.noarch 36/175 Verifying : libxcrypt-4.4.18-3.el9.x86_64 37/175 Verifying : libyaml-0.2.5-7.el9.x86_64 38/175 Verifying : acl-2.3.1-3.el9.x86_64 39/175 Verifying : mpfr-4.1.0-7.el9.x86_64 40/175 Verifying : popt-1.18-8.el9.x86_64 41/175 Verifying : readline-8.1-4.el9.x86_64 42/175 Verifying : cracklib-2.9.6-27.el9.x86_64 43/175 Verifying : libidn2-2.3.0-7.el9.x86_64 44/175 Verifying : gpgme-1.15.1-6.el9.x86_64 45/175 Verifying : passwd-0.80-12.el9.x86_64 46/175 Verifying : libevent-2.1.12-6.el9.x86_64 47/175 Verifying : python3-requests-2.25.1-6.el9.noarch 48/175 Verifying : libgpg-error-1.42-5.el9.x86_64 49/175 Verifying : libffi-3.4.2-7.el9.x86_64 50/175 Verifying : libzstd-1.5.1-2.el9.x86_64 51/175 Verifying : p11-kit-0.24.1-2.el9.x86_64 52/175 Verifying : libpsl-0.21.1-5.el9.x86_64 53/175 Verifying : python3-chardet-4.0.0-5.el9.noarch 54/175 Verifying : python3-pysocks-1.7.1-12.el9.noarch 55/175 Verifying : librhsm-0.0.3-7.el9.x86_64 56/175 Verifying : publicsuffix-list-dafsa-20210518-3.el9.noarch 57/175 Verifying : libdb-5.3.28-53.el9.x86_64 58/175 Verifying : dmidecode-1:3.3-7.el9.x86_64 59/175 Verifying : gmp-1:6.2.0-10.el9.x86_64 60/175 Verifying : libeconf-0.4.1-2.el9.x86_64 61/175 Verifying : libsigsegv-2.13-4.el9.x86_64 62/175 Verifying : alternatives-1.20-2.el9.x86_64 63/175 Verifying : libattr-2.5.1-3.el9.x86_64 64/175 Verifying : ima-evm-utils-1.4-4.el9.x86_64 65/175 Verifying : bzip2-libs-1.0.8-8.el9.x86_64 66/175 Verifying : python3-pip-wheel-21.2.3-6.el9.noarch 67/175 Verifying : gdbm-libs-1:1.19-4.el9.x86_64 68/175 Verifying : ca-certificates-2022.2.54-90.2.el9_0.noarch 69/175 Verifying : nettle-3.8-3.el9_0.x86_64 70/175 Verifying : cracklib-dicts-2.9.6-27.el9.x86_64 71/175 Verifying : xz-libs-5.2.5-8.el9_0.x86_64 72/175 Verifying : which-2.21-28.el9.x86_64 73/175 Verifying : p11-kit-trust-0.24.1-2.el9.x86_64 74/175 Verifying : pcre2-syntax-10.40-2.el9.noarch 75/175 Verifying : python3-six-1.15.0-9.el9.noarch 76/175 Verifying : python3-systemd-234-18.el9.x86_64 77/175 Verifying : gawk-5.1.0-6.el9.x86_64 78/175 Verifying : gnupg2-2.3.3-2.el9_0.x86_64 79/175 Verifying : libnl3-3.7.0-1.el9.x86_64 80/175 Verifying : python3-dateutil-1:2.8.1-6.el9.noarch 81/175 Verifying : subscription-manager-rhsm-certificates-20220623- 82/175 Verifying : libcom_err-1.46.5-3.el9.x86_64 83/175 Verifying : libksba-1.5.1-6.el9_1.x86_64 84/175 Verifying : libdnf-0.69.0-3.el9_2.x86_64 85/175 Verifying : pcre2-10.40-2.el9.x86_64 86/175 Verifying : python3-gobject-base-noarch-3.40.1-6.el9.noarch 87/175 Verifying : dbus-1:1.12.20-7.el9_1.x86_64 88/175 Verifying : openldap-2.6.2-3.el9.x86_64 89/175 Verifying : libtasn1-4.16.0-8.el9_1.x86_64 90/175 Verifying : audit-libs-3.0.7-103.el9.x86_64 91/175 Verifying : bash-5.1.8-6.el9_1.x86_64 92/175 Verifying : krb5-libs-1.20.1-8.el9.x86_64 93/175 Verifying : dbus-common-1:1.12.20-7.el9_1.noarch 94/175 Verifying : tzdata-2023c-1.el9.noarch 95/175 Verifying : libsolv-0.7.22-4.el9.x86_64 96/175 Verifying : gzip-1.12-1.el9.x86_64 97/175 Verifying : sqlite-libs-3.34.1-6.el9_1.x86_64 98/175 Verifying : dbus-libs-1:1.12.20-7.el9_1.x86_64 99/175 Verifying : libselinux-3.5-1.el9.x86_64 100/175 Verifying : openldap-compat-2.6.2-3.el9.x86_64 101/175 Verifying : python3-libdnf-0.69.0-3.el9_2.x86_64 102/175 Verifying : python3-gobject-base-3.40.1-6.el9.x86_64 103/175 Verifying : cyrus-sasl-lib-2.1.27-21.el9.x86_64 104/175 Verifying : libxml2-2.9.13-3.el9_1.x86_64 105/175 Verifying : tpm2-tss-3.0.3-8.el9.x86_64 106/175 Verifying : dbus-broker-28-7.el9.x86_64 107/175 Verifying : python3-setuptools-wheel-53.0.0-12.el9.noarch 108/175 Verifying : keyutils-libs-1.6.3-1.el9.x86_64 109/175 Verifying : systemd-libs-252-13.el9_2.x86_64 110/175 Verifying : glibc-2.34-60.el9.x86_64 111/175 Verifying : systemd-rpm-macros-252-13.el9_2.noarch 112/175 Verifying : libgomp-11.3.1-4.3.el9.x86_64 113/175 Verifying : python3-setuptools-53.0.0-12.el9.noarch 114/175 Verifying : gobject-introspection-1.68.0-11.el9.x86_64 115/175 Verifying : expat-2.5.0-1.el9.x86_64 116/175 Verifying : setup-2.13.7-9.el9.noarch 117/175 Verifying : redhat-release-9.2-0.13.el9.x86_64 118/175 Verifying : libsemanage-3.5-1.el9.x86_64 119/175 Verifying : libdnf-plugin-subscription-manager-1.29.33.1-1.e 120/175 Verifying : shadow-utils-2:4.9-6.el9.x86_64 121/175 Verifying : python3-dnf-4.14.0-5.el9_2.noarch 122/175 Verifying : libstdc++-11.3.1-4.3.el9.x86_64 123/175 Verifying : subscription-manager-1.29.33.1-1.el9_2.x86_64 124/175 Verifying : libssh-0.10.4-8.el9.x86_64 125/175 Verifying : librepo-1.14.5-1.el9.x86_64 126/175 Verifying : python3-cloud-what-1.29.33.1-1.el9_2.x86_64 127/175 Verifying : libgcc-11.3.1-4.3.el9.x86_64 128/175 Verifying : python3-hawkey-0.69.0-3.el9_2.x86_64 129/175 Verifying : glibc-common-2.34-60.el9.x86_64 130/175 Verifying : elfutils-libs-0.188-3.el9.x86_64 131/175 Verifying : elfutils-default-yama-scope-0.188-3.el9.noarch 132/175 Verifying : libarchive-3.5.3-4.el9.x86_64 133/175 Verifying : rpm-libs-4.16.1.3-22.el9.x86_64 134/175 Verifying : python3-rpm-4.16.1.3-22.el9.x86_64 135/175 Verifying : dnf-data-4.14.0-5.el9_2.noarch 136/175 Verifying : systemd-pam-252-13.el9_2.x86_64 137/175 Verifying : python3-libs-3.9.16-1.el9.x86_64 138/175 Verifying : openssl-1:3.0.7-6.el9_2.x86_64 139/175 Verifying : gnutls-3.7.6-20.el9_2.x86_64 140/175 Verifying : dnf-4.14.0-5.el9_2.noarch 141/175 Verifying : libssh-config-0.10.4-8.el9.noarch 142/175 Verifying : coreutils-8.32-34.el9.x86_64 143/175 Verifying : python3-dnf-plugins-core-4.3.0-5.el9_2.noarch 144/175 Verifying : libuser-0.63-12.el9.x86_64 145/175 Verifying : zlib-1.2.11-39.el9.x86_64 146/175 Verifying : rpm-4.16.1.3-22.el9.x86_64 147/175 Verifying : coreutils-common-8.32-34.el9.x86_64 148/175 Verifying : libsepol-3.5-1.el9.x86_64 149/175 Verifying : crypto-policies-20221215-1.git9a18988.el9.noarch 150/175 Verifying : glibc-minimal-langpack-2.34-60.el9.x86_64 151/175 Verifying : python3-3.9.16-1.el9.x86_64 152/175 Verifying : file-libs-5.39-12.el9.x86_64 153/175 Verifying : rpm-build-libs-4.16.1.3-22.el9.x86_64 154/175 Verifying : openssl-libs-1:3.0.7-6.el9_2.x86_64 155/175 Verifying : lua-libs-5.4.4-3.el9.x86_64 156/175 Verifying : python3-librepo-1.14.5-1.el9.x86_64 157/175 Verifying : rpm-sign-libs-4.16.1.3-22.el9.x86_64 158/175 Verifying : glib2-2.68.4-6.el9.x86_64 159/175 Verifying : elfutils-libelf-0.188-3.el9.x86_64 160/175 Verifying : dnf-plugins-core-4.3.0-5.el9_2.noarch 161/175 Verifying : python3-subscription-manager-rhsm-1.29.33.1-1.el 162/175 Verifying : systemd-252-13.el9_2.x86_64 163/175 Verifying : pam-1.5.1-14.el9.x86_64 164/175 Verifying : virt-what-1.25-3.el9.x86_64 165/175 Verifying : libfdisk-2.37.4-11.el9_2.x86_64 166/175 Verifying : libcurl-7.76.1-23.el9_2.1.x86_64 167/175 Verifying : libgcrypt-1.10.0-10.el9_2.x86_64 168/175 Verifying : libblkid-2.37.4-11.el9_2.x86_64 169/175 Verifying : curl-7.76.1-23.el9_2.1.x86_64 170/175 Verifying : libmount-2.37.4-11.el9_2.x86_64 171/175 Verifying : libsmartcols-2.37.4-11.el9_2.x86_64 172/175 Verifying : util-linux-core-2.37.4-11.el9_2.x86_64 173/175 Verifying : util-linux-2.37.4-11.el9_2.x86_64 174/175 Verifying : libuuid-2.37.4-11.el9_2.x86_64 175/175 Installed products updated. Installed: acl-2.3.1-3.el9.x86_64 alternatives-1.20-2.el9.x86_64 audit-libs-3.0.7-103.el9.x86_64 basesystem-11-13.el9.noarch bash-5.1.8-6.el9_1.x86_64 bzip2-libs-1.0.8-8.el9.x86_64 ca-certificates-2022.2.54-90.2.el9_0.noarch coreutils-8.32-34.el9.x86_64 coreutils-common-8.32-34.el9.x86_64 cracklib-2.9.6-27.el9.x86_64 cracklib-dicts-2.9.6-27.el9.x86_64 crypto-policies-20221215-1.git9a18988.el9.noarch curl-7.76.1-23.el9_2.1.x86_64 cyrus-sasl-lib-2.1.27-21.el9.x86_64 dbus-1:1.12.20-7.el9_1.x86_64 dbus-broker-28-7.el9.x86_64 dbus-common-1:1.12.20-7.el9_1.noarch dbus-libs-1:1.12.20-7.el9_1.x86_64 dmidecode-1:3.3-7.el9.x86_64 dnf-4.14.0-5.el9_2.noarch dnf-data-4.14.0-5.el9_2.noarch dnf-plugins-core-4.3.0-5.el9_2.noarch elfutils-default-yama-scope-0.188-3.el9.noarch elfutils-libelf-0.188-3.el9.x86_64 elfutils-libs-0.188-3.el9.x86_64 expat-2.5.0-1.el9.x86_64 file-libs-5.39-12.el9.x86_64 filesystem-3.16-2.el9.x86_64 gawk-5.1.0-6.el9.x86_64 gdbm-libs-1:1.19-4.el9.x86_64 glib2-2.68.4-6.el9.x86_64 glibc-2.34-60.el9.x86_64 glibc-common-2.34-60.el9.x86_64 glibc-minimal-langpack-2.34-60.el9.x86_64 gmp-1:6.2.0-10.el9.x86_64 gnupg2-2.3.3-2.el9_0.x86_64 gnutls-3.7.6-20.el9_2.x86_64 gobject-introspection-1.68.0-11.el9.x86_64 gpgme-1.15.1-6.el9.x86_64 grep-3.6-5.el9.x86_64 gzip-1.12-1.el9.x86_64 ima-evm-utils-1.4-4.el9.x86_64 json-c-0.14-11.el9.x86_64 json-glib-1.6.6-1.el9.x86_64 keyutils-libs-1.6.3-1.el9.x86_64 kmod-libs-28-7.el9.x86_64 krb5-libs-1.20.1-8.el9.x86_64 libacl-2.3.1-3.el9.x86_64 libarchive-3.5.3-4.el9.x86_64 libassuan-2.5.5-3.el9.x86_64 libattr-2.5.1-3.el9.x86_64 libblkid-2.37.4-11.el9_2.x86_64 libbrotli-1.0.9-6.el9.x86_64 libcap-2.48-8.el9.x86_64 libcap-ng-0.8.2-7.el9.x86_64 libcom_err-1.46.5-3.el9.x86_64 libcomps-0.1.18-1.el9.x86_64 libcurl-7.76.1-23.el9_2.1.x86_64 libdb-5.3.28-53.el9.x86_64 libdnf-0.69.0-3.el9_2.x86_64 libdnf-plugin-subscription-manager-1.29.33.1-1.el9_2.x86_64 libeconf-0.4.1-2.el9.x86_64 libevent-2.1.12-6.el9.x86_64 libfdisk-2.37.4-11.el9_2.x86_64 libffi-3.4.2-7.el9.x86_64 libgcc-11.3.1-4.3.el9.x86_64 libgcrypt-1.10.0-10.el9_2.x86_64 libgomp-11.3.1-4.3.el9.x86_64 libgpg-error-1.42-5.el9.x86_64 libidn2-2.3.0-7.el9.x86_64 libksba-1.5.1-6.el9_1.x86_64 libmodulemd-2.13.0-2.el9.x86_64 libmount-2.37.4-11.el9_2.x86_64 libnghttp2-1.43.0-5.el9.x86_64 libnl3-3.7.0-1.el9.x86_64 libpsl-0.21.1-5.el9.x86_64 libpwquality-1.4.4-8.el9.x86_64 librepo-1.14.5-1.el9.x86_64 libreport-filesystem-2.15.2-6.el9.noarch librhsm-0.0.3-7.el9.x86_64 libseccomp-2.5.2-2.el9.x86_64 libselinux-3.5-1.el9.x86_64 libsemanage-3.5-1.el9.x86_64 libsepol-3.5-1.el9.x86_64 libsigsegv-2.13-4.el9.x86_64 libsmartcols-2.37.4-11.el9_2.x86_64 libsolv-0.7.22-4.el9.x86_64 libssh-0.10.4-8.el9.x86_64 libssh-config-0.10.4-8.el9.noarch libstdc++-11.3.1-4.3.el9.x86_64 libtasn1-4.16.0-8.el9_1.x86_64 libunistring-0.9.10-15.el9.x86_64 libuser-0.63-12.el9.x86_64 libutempter-1.2.1-6.el9.x86_64 libuuid-2.37.4-11.el9_2.x86_64 libverto-0.3.2-3.el9.x86_64 libxcrypt-4.4.18-3.el9.x86_64 libxml2-2.9.13-3.el9_1.x86_64 libyaml-0.2.5-7.el9.x86_64 libzstd-1.5.1-2.el9.x86_64 lua-libs-5.4.4-3.el9.x86_64 lz4-libs-1.9.3-5.el9.x86_64 mpfr-4.1.0-7.el9.x86_64 ncurses-base-6.2-8.20210508.el9.noarch ncurses-libs-6.2-8.20210508.el9.x86_64 nettle-3.8-3.el9_0.x86_64 npth-1.6-8.el9.x86_64 openldap-2.6.2-3.el9.x86_64 openldap-compat-2.6.2-3.el9.x86_64 openssl-1:3.0.7-6.el9_2.x86_64 openssl-libs-1:3.0.7-6.el9_2.x86_64 p11-kit-0.24.1-2.el9.x86_64 p11-kit-trust-0.24.1-2.el9.x86_64 pam-1.5.1-14.el9.x86_64 passwd-0.80-12.el9.x86_64 pcre-8.44-3.el9.3.x86_64 pcre2-10.40-2.el9.x86_64 pcre2-syntax-10.40-2.el9.noarch popt-1.18-8.el9.x86_64 publicsuffix-list-dafsa-20210518-3.el9.noarch python3-3.9.16-1.el9.x86_64 python3-chardet-4.0.0-5.el9.noarch python3-cloud-what-1.29.33.1-1.el9_2.x86_64 python3-dateutil-1:2.8.1-6.el9.noarch python3-dbus-1.2.18-2.el9.x86_64 python3-decorator-4.4.2-6.el9.noarch python3-dnf-4.14.0-5.el9_2.noarch python3-dnf-plugins-core-4.3.0-5.el9_2.noarch python3-ethtool-0.15-2.el9.x86_64 python3-gobject-base-3.40.1-6.el9.x86_64 python3-gobject-base-noarch-3.40.1-6.el9.noarch python3-gpg-1.15.1-6.el9.x86_64 python3-hawkey-0.69.0-3.el9_2.x86_64 python3-idna-2.10-7.el9.noarch python3-iniparse-0.4-45.el9.noarch python3-inotify-0.9.6-25.el9.noarch python3-libcomps-0.1.18-1.el9.x86_64 python3-libdnf-0.69.0-3.el9_2.x86_64 python3-librepo-1.14.5-1.el9.x86_64 python3-libs-3.9.16-1.el9.x86_64 python3-pip-wheel-21.2.3-6.el9.noarch python3-pysocks-1.7.1-12.el9.noarch python3-requests-2.25.1-6.el9.noarch python3-rpm-4.16.1.3-22.el9.x86_64 python3-setuptools-53.0.0-12.el9.noarch python3-setuptools-wheel-53.0.0-12.el9.noarch python3-six-1.15.0-9.el9.noarch python3-subscription-manager-rhsm-1.29.33.1-1.el9_2.x86_64 python3-systemd-234-18.el9.x86_64 python3-urllib3-1.26.5-3.el9.noarch readline-8.1-4.el9.x86_64 redhat-release-9.2-0.13.el9.x86_64 rpm-4.16.1.3-22.el9.x86_64 rpm-build-libs-4.16.1.3-22.el9.x86_64 rpm-libs-4.16.1.3-22.el9.x86_64 rpm-sign-libs-4.16.1.3-22.el9.x86_64 sed-4.8-9.el9.x86_64 setup-2.13.7-9.el9.noarch shadow-utils-2:4.9-6.el9.x86_64 sqlite-libs-3.34.1-6.el9_1.x86_64 subscription-manager-1.29.33.1-1.el9_2.x86_64 subscription-manager-rhsm-certificates-20220623-1.el9.noarch systemd-252-13.el9_2.x86_64 systemd-libs-252-13.el9_2.x86_64 systemd-pam-252-13.el9_2.x86_64 systemd-rpm-macros-252-13.el9_2.noarch tpm2-tss-3.0.3-8.el9.x86_64 tzdata-2023c-1.el9.noarch usermode-1.114-4.el9.x86_64 util-linux-2.37.4-11.el9_2.x86_64 util-linux-core-2.37.4-11.el9_2.x86_64 virt-what-1.25-3.el9.x86_64 which-2.21-28.el9.x86_64 xz-libs-5.2.5-8.el9_0.x86_64 zlib-1.2.11-39.el9.x86_64 Complete! Finish(bootstrap): dnf install Start(bootstrap): creating root cache Finish(bootstrap): creating root cache Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-1684328434.275329/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: 3.5 INFO: Mock Version: 3.5 Start: dnf install No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 894 kB/s | 194 kB 00:00 Red Hat Enterprise Linux - BaseOS 14 MB/s | 12 MB 00:00 Red Hat Enterprise Linux - AppStream 18 MB/s | 21 MB 00:01 Red Hat Enterprise Linux - CodeReady Linux Buil 5.7 MB/s | 5.6 MB 00:00 Extra Packages for Enterprise Linux 9 - x86_64 39 MB/s | 15 MB 00:00 Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing: bash x86_64 5.1.8-6.el9_1 baseos 1.7 M bzip2 x86_64 1.0.8-8.el9 baseos 60 k coreutils x86_64 8.32-34.el9 baseos 1.2 M cpio x86_64 2.13-16.el9 baseos 279 k diffutils x86_64 3.7-12.el9 baseos 402 k epel-rpm-macros noarch 9-11.el9 epel 16 k findutils x86_64 1:4.8.0-5.el9 baseos 552 k gawk x86_64 5.1.0-6.el9 baseos 1.0 M glibc-minimal-langpack x86_64 2.34-60.el9 baseos 36 k grep x86_64 3.6-5.el9 baseos 273 k gzip x86_64 1.12-1.el9 baseos 167 k info x86_64 6.7-15.el9 baseos 228 k patch x86_64 2.7.6-16.el9 appstream 130 k redhat-release x86_64 9.2-0.13.el9 baseos 46 k redhat-rpm-config noarch 199-1.el9 appstream 76 k rpm-build x86_64 4.16.1.3-22.el9 appstream 105 k sed x86_64 4.8-9.el9 baseos 309 k shadow-utils x86_64 2:4.9-6.el9 baseos 1.2 M tar x86_64 2:1.34-6.el9_1 baseos 889 k unzip x86_64 6.0-56.el9 baseos 186 k util-linux x86_64 2.37.4-11.el9_2 baseos 2.3 M which x86_64 2.21-28.el9 baseos 45 k xz x86_64 5.2.5-8.el9_0 baseos 230 k Installing dependencies: alternatives x86_64 1.20-2.el9 baseos 40 k ansible-srpm-macros noarch 1-8.1.el9 epel 8.5 k audit-libs x86_64 3.0.7-103.el9 baseos 121 k basesystem noarch 11-13.el9 baseos 8.0 k binutils x86_64 2.35.2-37.el9 baseos 4.6 M binutils-gold x86_64 2.35.2-37.el9 baseos 734 k bzip2-libs x86_64 1.0.8-8.el9 baseos 42 k ca-certificates noarch 2022.2.54-90.2.el9_0 baseos 835 k coreutils-common x86_64 8.32-34.el9 baseos 2.0 M cracklib x86_64 2.9.6-27.el9 baseos 99 k cracklib-dicts x86_64 2.9.6-27.el9 baseos 3.6 M crypto-policies noarch 20221215-1.git9a18988.el9 baseos 85 k curl x86_64 7.76.1-23.el9_2.1 baseos 300 k cyrus-sasl-lib x86_64 2.1.27-21.el9 baseos 774 k dwz x86_64 0.14-3.el9 appstream 130 k ed x86_64 1.14.2-12.el9 baseos 78 k efi-srpm-macros noarch 6-2.el9_0 appstream 24 k elfutils x86_64 0.188-3.el9 baseos 533 k elfutils-debuginfod-client x86_64 0.188-3.el9 baseos 40 k elfutils-default-yama-scope noarch 0.188-3.el9 baseos 14 k elfutils-libelf x86_64 0.188-3.el9 baseos 198 k elfutils-libs x86_64 0.188-3.el9 baseos 256 k file x86_64 5.39-12.el9 baseos 52 k file-libs x86_64 5.39-12.el9 baseos 592 k filesystem x86_64 3.16-2.el9 baseos 4.7 M fonts-srpm-macros noarch 1:2.0.5-7.el9.1 appstream 29 k fpc-srpm-macros noarch 1.3-7.el9 epel 7.5 k gdb-minimal x86_64 10.2-10.el9 appstream 3.5 M gdbm-libs x86_64 1:1.19-4.el9 baseos 56 k ghc-srpm-macros noarch 1.5.0-6.el9 appstream 9.0 k glibc x86_64 2.34-60.el9 baseos 1.9 M glibc-common x86_64 2.34-60.el9 baseos 320 k glibc-gconv-extra x86_64 2.34-60.el9 baseos 1.7 M gmp x86_64 1:6.2.0-10.el9 baseos 320 k go-srpm-macros noarch 3.2.0-1.el9 appstream 29 k go-srpm-macros-epel noarch 1-8.el9 epel 22 k groff-base x86_64 1.22.4-10.el9 baseos 1.1 M kernel-srpm-macros noarch 1.0-12.el9 appstream 17 k keyutils-libs x86_64 1.6.3-1.el9 baseos 34 k krb5-libs x86_64 1.20.1-8.el9 baseos 731 k libacl x86_64 2.3.1-3.el9 baseos 26 k libarchive x86_64 3.5.3-4.el9 baseos 392 k libattr x86_64 2.5.1-3.el9 baseos 20 k libblkid x86_64 2.37.4-11.el9_2 baseos 109 k libbrotli x86_64 1.0.9-6.el9 baseos 317 k libcap x86_64 2.48-8.el9 baseos 76 k libcap-ng x86_64 0.8.2-7.el9 baseos 36 k libcom_err x86_64 1.46.5-3.el9 baseos 29 k libcurl x86_64 7.76.1-23.el9_2.1 baseos 288 k libdb x86_64 5.3.28-53.el9 baseos 740 k libeconf x86_64 0.4.1-2.el9 baseos 31 k libevent x86_64 2.1.12-6.el9 baseos 268 k libfdisk x86_64 2.37.4-11.el9_2 baseos 156 k libffi x86_64 3.4.2-7.el9 baseos 40 k libgcc x86_64 11.3.1-4.3.el9 baseos 114 k libgcrypt x86_64 1.10.0-10.el9_2 baseos 508 k libgomp x86_64 11.3.1-4.3.el9 baseos 288 k libgpg-error x86_64 1.42-5.el9 baseos 220 k libidn2 x86_64 2.3.0-7.el9 baseos 105 k libmount x86_64 2.37.4-11.el9_2 baseos 136 k libnghttp2 x86_64 1.43.0-5.el9 baseos 76 k libpkgconf x86_64 1.7.3-10.el9 baseos 37 k libpsl x86_64 0.21.1-5.el9 baseos 66 k libpwquality x86_64 1.4.4-8.el9 baseos 123 k libselinux x86_64 3.5-1.el9 baseos 88 k libsemanage x86_64 3.5-1.el9 baseos 121 k libsepol x86_64 3.5-1.el9 baseos 317 k libsigsegv x86_64 2.13-4.el9 baseos 30 k libsmartcols x86_64 2.37.4-11.el9_2 baseos 65 k libssh x86_64 0.10.4-8.el9 baseos 216 k libssh-config noarch 0.10.4-8.el9 baseos 11 k libstdc++ x86_64 11.3.1-4.3.el9 baseos 759 k libtasn1 x86_64 4.16.0-8.el9_1 baseos 77 k libunistring x86_64 0.9.10-15.el9 baseos 499 k libutempter x86_64 1.2.1-6.el9 baseos 30 k libuuid x86_64 2.37.4-11.el9_2 baseos 30 k libverto x86_64 0.3.2-3.el9 baseos 24 k libxcrypt x86_64 4.4.18-3.el9 baseos 120 k libxml2 x86_64 2.9.13-3.el9_1 baseos 752 k libzstd x86_64 1.5.1-2.el9 baseos 332 k lua-libs x86_64 5.4.4-3.el9 baseos 218 k lua-srpm-macros noarch 1-6.el9 appstream 10 k lz4-libs x86_64 1.9.3-5.el9 baseos 69 k mpfr x86_64 4.1.0-7.el9 baseos 329 k ncurses x86_64 6.2-8.20210508.el9 baseos 412 k ncurses-base noarch 6.2-8.20210508.el9 baseos 100 k ncurses-libs x86_64 6.2-8.20210508.el9 baseos 334 k ocaml-srpm-macros noarch 6-6.el9 appstream 9.1 k openblas-srpm-macros noarch 2-11.el9 appstream 8.6 k openldap x86_64 2.6.2-3.el9 baseos 287 k openssl x86_64 1:3.0.7-6.el9_2 baseos 1.2 M openssl-libs x86_64 1:3.0.7-6.el9_2 baseos 2.2 M p11-kit x86_64 0.24.1-2.el9 baseos 387 k p11-kit-trust x86_64 0.24.1-2.el9 baseos 148 k pam x86_64 1.5.1-14.el9 baseos 625 k pcre x86_64 8.44-3.el9.3 baseos 202 k pcre2 x86_64 10.40-2.el9 baseos 239 k pcre2-syntax noarch 10.40-2.el9 baseos 147 k perl-Carp noarch 1.50-460.el9 appstream 31 k perl-Class-Struct noarch 0.66-480.el9 appstream 24 k perl-Encode x86_64 4:3.08-462.el9 appstream 1.7 M perl-Errno x86_64 1.30-480.el9 appstream 17 k perl-Exporter noarch 5.74-461.el9 appstream 34 k perl-Fcntl x86_64 1.13-480.el9 appstream 23 k perl-File-Basename noarch 2.85-480.el9 appstream 19 k perl-File-Path noarch 2.18-4.el9 appstream 38 k perl-File-Temp noarch 1:0.231.100-4.el9 appstream 63 k perl-File-stat noarch 1.09-480.el9 appstream 19 k perl-Getopt-Long noarch 1:2.52-4.el9 appstream 64 k perl-Getopt-Std noarch 1.12-480.el9 appstream 17 k perl-HTTP-Tiny noarch 0.076-460.el9 appstream 58 k perl-IO x86_64 1.43-480.el9 appstream 94 k perl-IPC-Open3 noarch 1.21-480.el9 appstream 25 k perl-MIME-Base64 x86_64 3.16-4.el9 appstream 34 k perl-POSIX x86_64 1.94-480.el9 appstream 99 k perl-PathTools x86_64 3.78-461.el9 appstream 92 k perl-Pod-Escapes noarch 1:1.07-460.el9 appstream 22 k perl-Pod-Perldoc noarch 3.28.01-461.el9 appstream 92 k perl-Pod-Simple noarch 1:3.42-4.el9 appstream 229 k perl-Pod-Usage noarch 4:2.01-4.el9 appstream 43 k perl-Scalar-List-Utils x86_64 4:1.56-461.el9 appstream 77 k perl-SelectSaver noarch 1.02-480.el9 appstream 13 k perl-Socket x86_64 4:2.031-4.el9 appstream 58 k perl-Storable x86_64 1:3.21-460.el9 appstream 98 k perl-Symbol noarch 1.08-480.el9 appstream 16 k perl-Term-ANSIColor noarch 5.01-461.el9 appstream 51 k perl-Term-Cap noarch 1.17-460.el9 appstream 24 k perl-Text-ParseWords noarch 3.30-460.el9 appstream 18 k perl-Text-Tabs+Wrap noarch 2013.0523-460.el9 appstream 25 k perl-Time-Local noarch 2:1.300-7.el9 appstream 37 k perl-constant noarch 1.33-461.el9 appstream 25 k perl-if noarch 0.60.800-480.el9 appstream 16 k perl-interpreter x86_64 4:5.32.1-480.el9 appstream 75 k perl-libs x86_64 4:5.32.1-480.el9 appstream 2.2 M perl-mro x86_64 1.23-480.el9 appstream 31 k perl-overload noarch 1.31-480.el9 appstream 47 k perl-overloading noarch 0.02-480.el9 appstream 15 k perl-parent noarch 1:0.238-460.el9 appstream 16 k perl-podlators noarch 1:4.14-460.el9 appstream 118 k perl-srpm-macros noarch 1-41.el9 appstream 9.4 k perl-subs noarch 1.03-480.el9 appstream 13 k perl-vars noarch 1.05-480.el9 appstream 15 k pkgconf x86_64 1.7.3-10.el9 baseos 45 k pkgconf-m4 noarch 1.7.3-10.el9 baseos 16 k pkgconf-pkg-config x86_64 1.7.3-10.el9 baseos 12 k popt x86_64 1.18-8.el9 baseos 69 k publicsuffix-list-dafsa noarch 20210518-3.el9 baseos 59 k pyproject-srpm-macros noarch 1.6.2-1.el9 appstream 15 k python-srpm-macros noarch 3.9-52.el9 appstream 24 k qt5-srpm-macros noarch 5.15.3-1.el9 appstream 9.9 k readline x86_64 8.1-4.el9 baseos 215 k rpm x86_64 4.16.1.3-22.el9 baseos 542 k rpm-build-libs x86_64 4.16.1.3-22.el9 baseos 91 k rpm-libs x86_64 4.16.1.3-22.el9 baseos 309 k rpmautospec-rpm-macros noarch 0.3.5-1.el9 epel 9.1 k rust-srpm-macros noarch 17-4.el9 appstream 11 k setup noarch 2.13.7-9.el9 baseos 150 k sqlite-libs x86_64 3.34.1-6.el9_1 baseos 622 k systemd-libs x86_64 252-13.el9_2 baseos 652 k tzdata noarch 2023c-1.el9 baseos 845 k util-linux-core x86_64 2.37.4-11.el9_2 baseos 464 k xz-libs x86_64 5.2.5-8.el9_0 baseos 94 k zip x86_64 3.0-35.el9 baseos 270 k zlib x86_64 1.2.11-39.el9 baseos 94 k zstd x86_64 1.5.1-2.el9 baseos 552 k Transaction Summary ================================================================================ Install 188 Packages Total download size: 66 M Installed size: 210 M Downloading Packages: (1/188): libutempter-1.2.1-6.el9.x86_64.rpm 130 kB/s | 30 kB 00:00 (2/188): libpwquality-1.4.4-8.el9.x86_64.rpm 459 kB/s | 123 kB 00:00 (3/188): lz4-libs-1.9.3-5.el9.x86_64.rpm 175 kB/s | 69 kB 00:00 (4/188): bzip2-1.0.8-8.el9.x86_64.rpm 252 kB/s | 60 kB 00:00 (5/188): libcap-2.48-8.el9.x86_64.rpm 261 kB/s | 76 kB 00:00 (6/188): ed-1.14.2-12.el9.x86_64.rpm 169 kB/s | 78 kB 00:00 (7/188): libacl-2.3.1-3.el9.x86_64.rpm 41 kB/s | 26 kB 00:00 (8/188): ncurses-6.2-8.20210508.el9.x86_64.rpm 460 kB/s | 412 kB 00:00 (9/188): libcap-ng-0.8.2-7.el9.x86_64.rpm 94 kB/s | 36 kB 00:00 (10/188): libnghttp2-1.43.0-5.el9.x86_64.rpm 381 kB/s | 76 kB 00:00 (11/188): pcre-8.44-3.el9.3.x86_64.rpm 973 kB/s | 202 kB 00:00 (12/188): info-6.7-15.el9.x86_64.rpm 1.3 MB/s | 228 kB 00:00 (13/188): unzip-6.0-56.el9.x86_64.rpm 1.2 MB/s | 186 kB 00:00 (14/188): filesystem-3.16-2.el9.x86_64.rpm 11 MB/s | 4.7 MB 00:00 (15/188): groff-base-1.22.4-10.el9.x86_64.rpm 4.6 MB/s | 1.1 MB 00:00 (16/188): grep-3.6-5.el9.x86_64.rpm 2.4 MB/s | 273 kB 00:00 (17/188): sed-4.8-9.el9.x86_64.rpm 1.9 MB/s | 309 kB 00:00 (18/188): ncurses-libs-6.2-8.20210508.el9.x86_6 901 kB/s | 334 kB 00:00 (19/188): libunistring-0.9.10-15.el9.x86_64.rpm 1.7 MB/s | 499 kB 00:00 (20/188): basesystem-11-13.el9.noarch.rpm 28 kB/s | 8.0 kB 00:00 (21/188): libverto-0.3.2-3.el9.x86_64.rpm 161 kB/s | 24 kB 00:00 (22/188): ncurses-base-6.2-8.20210508.el9.noarc 658 kB/s | 100 kB 00:00 (23/188): libbrotli-1.0.9-6.el9.x86_64.rpm 1.0 MB/s | 317 kB 00:00 (24/188): libxcrypt-4.4.18-3.el9.x86_64.rpm 835 kB/s | 120 kB 00:00 (25/188): mpfr-4.1.0-7.el9.x86_64.rpm 2.3 MB/s | 329 kB 00:00 (26/188): cracklib-2.9.6-27.el9.x86_64.rpm 938 kB/s | 99 kB 00:00 (27/188): readline-8.1-4.el9.x86_64.rpm 1.9 MB/s | 215 kB 00:00 (28/188): popt-1.18-8.el9.x86_64.rpm 139 kB/s | 69 kB 00:00 (29/188): libidn2-2.3.0-7.el9.x86_64.rpm 307 kB/s | 105 kB 00:00 (30/188): libevent-2.1.12-6.el9.x86_64.rpm 771 kB/s | 268 kB 00:00 (31/188): libffi-3.4.2-7.el9.x86_64.rpm 453 kB/s | 40 kB 00:00 (32/188): libgpg-error-1.42-5.el9.x86_64.rpm 1.7 MB/s | 220 kB 00:00 (33/188): libzstd-1.5.1-2.el9.x86_64.rpm 2.7 MB/s | 332 kB 00:00 (34/188): libpsl-0.21.1-5.el9.x86_64.rpm 672 kB/s | 66 kB 00:00 (35/188): libdb-5.3.28-53.el9.x86_64.rpm 7.1 MB/s | 740 kB 00:00 (36/188): p11-kit-0.24.1-2.el9.x86_64.rpm 1.5 MB/s | 387 kB 00:00 (37/188): publicsuffix-list-dafsa-20210518-3.el 291 kB/s | 59 kB 00:00 (38/188): gmp-6.2.0-10.el9.x86_64.rpm 3.3 MB/s | 320 kB 00:00 (39/188): libeconf-0.4.1-2.el9.x86_64.rpm 323 kB/s | 31 kB 00:00 (40/188): libsigsegv-2.13-4.el9.x86_64.rpm 290 kB/s | 30 kB 00:00 (41/188): alternatives-1.20-2.el9.x86_64.rpm 367 kB/s | 40 kB 00:00 (42/188): libattr-2.5.1-3.el9.x86_64.rpm 175 kB/s | 20 kB 00:00 (43/188): bzip2-libs-1.0.8-8.el9.x86_64.rpm 345 kB/s | 42 kB 00:00 (44/188): cpio-2.13-16.el9.x86_64.rpm 2.1 MB/s | 279 kB 00:00 (45/188): gdbm-libs-1.19-4.el9.x86_64.rpm 595 kB/s | 56 kB 00:00 (46/188): findutils-4.8.0-5.el9.x86_64.rpm 4.6 MB/s | 552 kB 00:00 (47/188): ca-certificates-2022.2.54-90.2.el9_0. 5.2 MB/s | 835 kB 00:00 (48/188): xz-5.2.5-8.el9_0.x86_64.rpm 1.5 MB/s | 230 kB 00:00 (49/188): which-2.21-28.el9.x86_64.rpm 278 kB/s | 45 kB 00:00 (50/188): cracklib-dicts-2.9.6-27.el9.x86_64.rp 11 MB/s | 3.6 MB 00:00 (51/188): xz-libs-5.2.5-8.el9_0.x86_64.rpm 468 kB/s | 94 kB 00:00 (52/188): p11-kit-trust-0.24.1-2.el9.x86_64.rpm 1.6 MB/s | 148 kB 00:00 (53/188): pcre2-syntax-10.40-2.el9.noarch.rpm 1.4 MB/s | 147 kB 00:00 (54/188): zstd-1.5.1-2.el9.x86_64.rpm 4.2 MB/s | 552 kB 00:00 (55/188): diffutils-3.7-12.el9.x86_64.rpm 3.3 MB/s | 402 kB 00:00 (56/188): gawk-5.1.0-6.el9.x86_64.rpm 6.7 MB/s | 1.0 MB 00:00 (57/188): libcom_err-1.46.5-3.el9.x86_64.rpm 223 kB/s | 29 kB 00:00 (58/188): pcre2-10.40-2.el9.x86_64.rpm 2.2 MB/s | 239 kB 00:00 (59/188): tar-1.34-6.el9_1.x86_64.rpm 7.6 MB/s | 889 kB 00:00 (60/188): libtasn1-4.16.0-8.el9_1.x86_64.rpm 832 kB/s | 77 kB 00:00 (61/188): openldap-2.6.2-3.el9.x86_64.rpm 1.8 MB/s | 287 kB 00:00 (62/188): audit-libs-3.0.7-103.el9.x86_64.rpm 1.2 MB/s | 121 kB 00:00 (63/188): krb5-libs-1.20.1-8.el9.x86_64.rpm 6.5 MB/s | 731 kB 00:00 (64/188): bash-5.1.8-6.el9_1.x86_64.rpm 9.4 MB/s | 1.7 MB 00:00 (65/188): tzdata-2023c-1.el9.noarch.rpm 5.6 MB/s | 845 kB 00:00 (66/188): gzip-1.12-1.el9.x86_64.rpm 1.8 MB/s | 167 kB 00:00 (67/188): sqlite-libs-3.34.1-6.el9_1.x86_64.rpm 3.9 MB/s | 622 kB 00:00 (68/188): cyrus-sasl-lib-2.1.27-21.el9.x86_64.r 5.2 MB/s | 774 kB 00:00 (69/188): libselinux-3.5-1.el9.x86_64.rpm 546 kB/s | 88 kB 00:00 (70/188): libxml2-2.9.13-3.el9_1.x86_64.rpm 6.0 MB/s | 752 kB 00:00 (71/188): keyutils-libs-1.6.3-1.el9.x86_64.rpm 286 kB/s | 34 kB 00:00 (72/188): systemd-libs-252-13.el9_2.x86_64.rpm 4.5 MB/s | 652 kB 00:00 (73/188): elfutils-0.188-3.el9.x86_64.rpm 3.7 MB/s | 533 kB 00:00 (74/188): glibc-2.34-60.el9.x86_64.rpm 9.5 MB/s | 1.9 MB 00:00 (75/188): libgomp-11.3.1-4.3.el9.x86_64.rpm 1.7 MB/s | 288 kB 00:00 (76/188): pkgconf-pkg-config-1.7.3-10.el9.x86_6 113 kB/s | 12 kB 00:00 (77/188): setup-2.13.7-9.el9.noarch.rpm 1.2 MB/s | 150 kB 00:00 (78/188): redhat-release-9.2-0.13.el9.x86_64.rp 475 kB/s | 46 kB 00:00 (79/188): libsemanage-3.5-1.el9.x86_64.rpm 1.0 MB/s | 121 kB 00:00 (80/188): libstdc++-11.3.1-4.3.el9.x86_64.rpm 6.8 MB/s | 759 kB 00:00 (81/188): shadow-utils-4.9-6.el9.x86_64.rpm 10 MB/s | 1.2 MB 00:00 (82/188): libssh-0.10.4-8.el9.x86_64.rpm 1.9 MB/s | 216 kB 00:00 (83/188): libgcc-11.3.1-4.3.el9.x86_64.rpm 1.0 MB/s | 114 kB 00:00 (84/188): binutils-2.35.2-37.el9.x86_64.rpm 28 MB/s | 4.6 MB 00:00 (85/188): glibc-common-2.34-60.el9.x86_64.rpm 2.4 MB/s | 320 kB 00:00 (86/188): elfutils-libs-0.188-3.el9.x86_64.rpm 2.7 MB/s | 256 kB 00:00 (87/188): elfutils-default-yama-scope-0.188-3.e 163 kB/s | 14 kB 00:00 (88/188): rpm-libs-4.16.1.3-22.el9.x86_64.rpm 3.3 MB/s | 309 kB 00:00 (89/188): libarchive-3.5.3-4.el9.x86_64.rpm 3.8 MB/s | 392 kB 00:00 (90/188): glibc-gconv-extra-2.34-60.el9.x86_64. 15 MB/s | 1.7 MB 00:00 (91/188): openssl-3.0.7-6.el9_2.x86_64.rpm 9.2 MB/s | 1.2 MB 00:00 (92/188): elfutils-debuginfod-client-0.188-3.el 246 kB/s | 40 kB 00:00 (93/188): pkgconf-1.7.3-10.el9.x86_64.rpm 244 kB/s | 45 kB 00:00 (94/188): coreutils-8.32-34.el9.x86_64.rpm 8.2 MB/s | 1.2 MB 00:00 (95/188): libssh-config-0.10.4-8.el9.noarch.rpm 68 kB/s | 11 kB 00:00 (96/188): zlib-1.2.11-39.el9.x86_64.rpm 973 kB/s | 94 kB 00:00 (97/188): rpm-4.16.1.3-22.el9.x86_64.rpm 5.2 MB/s | 542 kB 00:00 (98/188): libsepol-3.5-1.el9.x86_64.rpm 2.6 MB/s | 317 kB 00:00 (99/188): coreutils-common-8.32-34.el9.x86_64.r 12 MB/s | 2.0 MB 00:00 (100/188): crypto-policies-20221215-1.git9a1898 659 kB/s | 85 kB 00:00 (101/188): glibc-minimal-langpack-2.34-60.el9.x 371 kB/s | 36 kB 00:00 (102/188): binutils-gold-2.35.2-37.el9.x86_64.r 4.4 MB/s | 734 kB 00:00 (103/188): file-libs-5.39-12.el9.x86_64.rpm 4.0 MB/s | 592 kB 00:00 (104/188): rpm-build-libs-4.16.1.3-22.el9.x86_6 526 kB/s | 91 kB 00:00 (105/188): pkgconf-m4-1.7.3-10.el9.noarch.rpm 86 kB/s | 16 kB 00:00 (106/188): openssl-libs-3.0.7-6.el9_2.x86_64.rp 9.5 MB/s | 2.2 MB 00:00 (107/188): lua-libs-5.4.4-3.el9.x86_64.rpm 962 kB/s | 218 kB 00:00 (108/188): elfutils-libelf-0.188-3.el9.x86_64.r 1.0 MB/s | 198 kB 00:00 (109/188): zip-3.0-35.el9.x86_64.rpm 2.2 MB/s | 270 kB 00:00 (110/188): pam-1.5.1-14.el9.x86_64.rpm 6.1 MB/s | 625 kB 00:00 (111/188): file-5.39-12.el9.x86_64.rpm 188 kB/s | 52 kB 00:00 (112/188): libpkgconf-1.7.3-10.el9.x86_64.rpm 103 kB/s | 37 kB 00:00 (113/188): libfdisk-2.37.4-11.el9_2.x86_64.rpm 615 kB/s | 156 kB 00:00 (114/188): libcurl-7.76.1-23.el9_2.1.x86_64.rpm 1.0 MB/s | 288 kB 00:00 (115/188): libgcrypt-1.10.0-10.el9_2.x86_64.rpm 1.8 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perl-mro-1.23-480.el9.x86_64.rpm 339 kB/s | 31 kB 00:00 (173/188): perl-Fcntl-1.13-480.el9.x86_64.rpm 239 kB/s | 23 kB 00:00 (174/188): perl-IPC-Open3-1.21-480.el9.noarch.r 137 kB/s | 25 kB 00:00 (175/188): perl-File-Basename-2.85-480.el9.noar 140 kB/s | 19 kB 00:00 (176/188): perl-interpreter-5.32.1-480.el9.x86_ 592 kB/s | 75 kB 00:00 (177/188): perl-SelectSaver-1.02-480.el9.noarch 108 kB/s | 13 kB 00:00 (178/188): rpm-build-4.16.1.3-22.el9.x86_64.rpm 725 kB/s | 105 kB 00:00 (179/188): perl-Getopt-Std-1.12-480.el9.noarch. 70 kB/s | 17 kB 00:00 (180/188): perl-IO-1.43-480.el9.x86_64.rpm 477 kB/s | 94 kB 00:00 (181/188): perl-vars-1.05-480.el9.noarch.rpm 56 kB/s | 15 kB 00:00 (182/188): ansible-srpm-macros-1-8.1.el9.noarch 53 kB/s | 8.5 kB 00:00 (183/188): perl-subs-1.03-480.el9.noarch.rpm 69 kB/s | 13 kB 00:00 (184/188): perl-if-0.60.800-480.el9.noarch.rpm 73 kB/s | 16 kB 00:00 (185/188): epel-rpm-macros-9-11.el9.noarch.rpm 343 kB/s | 16 kB 00:00 (186/188): rpmautospec-rpm-macros-0.3.5-1.el9.n 155 kB/s | 9.1 kB 00:00 (187/188): fpc-srpm-macros-1.3-7.el9.noarch.rpm 56 kB/s | 7.5 kB 00:00 (188/188): go-srpm-macros-epel-1-8.el9.noarch.r 120 kB/s | 22 kB 00:00 -------------------------------------------------------------------------------- Total 5.6 MB/s | 66 MB 00:11 Red Hat Enterprise Linux - BaseOS 3.5 MB/s | 3.6 kB 00:00 Importing GPG key 0xFD431D51: Userid : "Red Hat, Inc. (release key 2) " Fingerprint: 567E 347A D004 4ADE 55BA 8A5F 199E 2F91 FD43 1D51 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Importing GPG key 0x5A6340B3: Userid : "Red Hat, Inc. (auxiliary key 3) " Fingerprint: 7E46 2425 8C40 6535 D56D 6F13 5054 E4A4 5A63 40B3 From : /usr/share/distribution-gpg-keys/redhat/RPM-GPG-KEY-redhat9-release Key imported successfully Extra Packages for Enterprise Linux 9 - x86_64 1.6 MB/s | 1.6 kB 00:00 Importing GPG key 0x3228467C: Userid : "Fedora (epel9) " Fingerprint: FF8A D134 4597 106E CE81 3B91 8A38 72BF 3228 467C From : /usr/share/distribution-gpg-keys/epel/RPM-GPG-KEY-EPEL-9 Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.16-2.el9.x86_64 1/1 Preparing : 1/1 Installing : libgcc-11.3.1-4.3.el9.x86_64 1/188 Running scriptlet: libgcc-11.3.1-4.3.el9.x86_64 1/188 Installing : crypto-policies-20221215-1.git9a18988.el9.noarch 2/188 Running scriptlet: crypto-policies-20221215-1.git9a18988.el9.noarch 2/188 Installing : redhat-release-9.2-0.13.el9.x86_64 3/188 Installing : setup-2.13.7-9.el9.noarch 4/188 warning: /etc/hosts created as /etc/hosts.rpmnew Running scriptlet: setup-2.13.7-9.el9.noarch 4/188 Installing : filesystem-3.16-2.el9.x86_64 5/188 Installing : basesystem-11-13.el9.noarch 6/188 Installing : fpc-srpm-macros-1.3-7.el9.noarch 7/188 Installing : ansible-srpm-macros-1-8.1.el9.noarch 8/188 Installing : pyproject-srpm-macros-1.6.2-1.el9.noarch 9/188 Installing : qt5-srpm-macros-5.15.3-1.el9.noarch 10/188 Installing : ocaml-srpm-macros-6-6.el9.noarch 11/188 Installing : openblas-srpm-macros-2-11.el9.noarch 12/188 Installing : 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libutempter-1.2.1-6.el9.x86_64 138/188 Installing : patch-2.7.6-16.el9.x86_64 139/188 Installing : libtasn1-4.16.0-8.el9_1.x86_64 140/188 Installing : p11-kit-trust-0.24.1-2.el9.x86_64 141/188 Running scriptlet: p11-kit-trust-0.24.1-2.el9.x86_64 141/188 Installing : openssl-libs-1:3.0.7-6.el9_2.x86_64 142/188 Installing : coreutils-8.32-34.el9.x86_64 143/188 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 144/188 Installing : ca-certificates-2022.2.54-90.2.el9_0.noarch 144/188 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 144/188 Installing : libblkid-2.37.4-11.el9_2.x86_64 145/188 Running scriptlet: libblkid-2.37.4-11.el9_2.x86_64 145/188 Installing : libmount-2.37.4-11.el9_2.x86_64 146/188 Installing : gzip-1.12-1.el9.x86_64 147/188 Installing : cracklib-2.9.6-27.el9.x86_64 148/188 Installing : systemd-libs-252-13.el9_2.x86_64 149/188 Running scriptlet: systemd-libs-252-13.el9_2.x86_64 149/188 Installing : util-linux-core-2.37.4-11.el9_2.x86_64 150/188 Running scriptlet: util-linux-core-2.37.4-11.el9_2.x86_64 150/188 Installing : cracklib-dicts-2.9.6-27.el9.x86_64 151/188 Installing : libfdisk-2.37.4-11.el9_2.x86_64 152/188 Installing : openssl-1:3.0.7-6.el9_2.x86_64 153/188 Installing : pam-1.5.1-14.el9.x86_64 154/188 Installing : libpwquality-1.4.4-8.el9.x86_64 155/188 Installing : libevent-2.1.12-6.el9.x86_64 156/188 Installing : libarchive-3.5.3-4.el9.x86_64 157/188 Installing : keyutils-libs-1.6.3-1.el9.x86_64 158/188 Installing : krb5-libs-1.20.1-8.el9.x86_64 159/188 Installing : cyrus-sasl-lib-2.1.27-21.el9.x86_64 160/188 Installing : openldap-2.6.2-3.el9.x86_64 161/188 Installing : libssh-0.10.4-8.el9.x86_64 162/188 Installing : libcurl-7.76.1-23.el9_2.1.x86_64 163/188 Installing : elfutils-debuginfod-client-0.188-3.el9.x86_64 164/188 Installing : binutils-gold-2.35.2-37.el9.x86_64 165/188 Installing : binutils-2.35.2-37.el9.x86_64 166/188 Running scriptlet: binutils-2.35.2-37.el9.x86_64 166/188 Installing : elfutils-0.188-3.el9.x86_64 167/188 Installing : gdb-minimal-10.2-10.el9.x86_64 168/188 Installing : curl-7.76.1-23.el9_2.1.x86_64 169/188 Installing : rpm-libs-4.16.1.3-22.el9.x86_64 170/188 Installing : rpm-4.16.1.3-22.el9.x86_64 171/188 Installing : lua-srpm-macros-1-6.el9.noarch 172/188 Installing : efi-srpm-macros-6-2.el9_0.noarch 173/188 Installing : python-srpm-macros-3.9-52.el9.noarch 174/188 Installing : fonts-srpm-macros-1:2.0.5-7.el9.1.noarch 175/188 Installing : go-srpm-macros-3.2.0-1.el9.noarch 176/188 Installing : redhat-rpm-config-199-1.el9.noarch 177/188 Installing : go-srpm-macros-epel-1-8.el9.noarch 178/188 Installing : rpmautospec-rpm-macros-0.3.5-1.el9.noarch 179/188 Installing : libgomp-11.3.1-4.3.el9.x86_64 180/188 Installing : rpm-build-libs-4.16.1.3-22.el9.x86_64 181/188 Installing : libpkgconf-1.7.3-10.el9.x86_64 182/188 Installing : pkgconf-1.7.3-10.el9.x86_64 183/188 Installing : pkgconf-pkg-config-1.7.3-10.el9.x86_64 184/188 Installing : rpm-build-4.16.1.3-22.el9.x86_64 185/188 Installing : epel-rpm-macros-9-11.el9.noarch 186/188 Installing : util-linux-2.37.4-11.el9_2.x86_64 187/188 Installing : which-2.21-28.el9.x86_64 188/188 Running scriptlet: filesystem-3.16-2.el9.x86_64 188/188 Running scriptlet: ca-certificates-2022.2.54-90.2.el9_0.noarch 188/188 Running scriptlet: rpm-4.16.1.3-22.el9.x86_64 188/188 Running scriptlet: which-2.21-28.el9.x86_64 188/188 Verifying : libpwquality-1.4.4-8.el9.x86_64 1/188 Verifying : libutempter-1.2.1-6.el9.x86_64 2/188 Verifying : lz4-libs-1.9.3-5.el9.x86_64 3/188 Verifying : bzip2-1.0.8-8.el9.x86_64 4/188 Verifying : libcap-2.48-8.el9.x86_64 5/188 Verifying : ncurses-6.2-8.20210508.el9.x86_64 6/188 Verifying : ed-1.14.2-12.el9.x86_64 7/188 Verifying : libacl-2.3.1-3.el9.x86_64 8/188 Verifying : libcap-ng-0.8.2-7.el9.x86_64 9/188 Verifying : libnghttp2-1.43.0-5.el9.x86_64 10/188 Verifying : filesystem-3.16-2.el9.x86_64 11/188 Verifying : pcre-8.44-3.el9.3.x86_64 12/188 Verifying : info-6.7-15.el9.x86_64 13/188 Verifying : groff-base-1.22.4-10.el9.x86_64 14/188 Verifying : unzip-6.0-56.el9.x86_64 15/188 Verifying : sed-4.8-9.el9.x86_64 16/188 Verifying : ncurses-libs-6.2-8.20210508.el9.x86_64 17/188 Verifying : grep-3.6-5.el9.x86_64 18/188 Verifying : libunistring-0.9.10-15.el9.x86_64 19/188 Verifying : basesystem-11-13.el9.noarch 20/188 Verifying : libbrotli-1.0.9-6.el9.x86_64 21/188 Verifying : libverto-0.3.2-3.el9.x86_64 22/188 Verifying : ncurses-base-6.2-8.20210508.el9.noarch 23/188 Verifying : libxcrypt-4.4.18-3.el9.x86_64 24/188 Verifying : mpfr-4.1.0-7.el9.x86_64 25/188 Verifying : popt-1.18-8.el9.x86_64 26/188 Verifying : readline-8.1-4.el9.x86_64 27/188 Verifying : cracklib-2.9.6-27.el9.x86_64 28/188 Verifying : libidn2-2.3.0-7.el9.x86_64 29/188 Verifying : libevent-2.1.12-6.el9.x86_64 30/188 Verifying : libgpg-error-1.42-5.el9.x86_64 31/188 Verifying : libffi-3.4.2-7.el9.x86_64 32/188 Verifying : libzstd-1.5.1-2.el9.x86_64 33/188 Verifying : p11-kit-0.24.1-2.el9.x86_64 34/188 Verifying : libpsl-0.21.1-5.el9.x86_64 35/188 Verifying : publicsuffix-list-dafsa-20210518-3.el9.noarch 36/188 Verifying : libdb-5.3.28-53.el9.x86_64 37/188 Verifying : gmp-1:6.2.0-10.el9.x86_64 38/188 Verifying : libeconf-0.4.1-2.el9.x86_64 39/188 Verifying : libsigsegv-2.13-4.el9.x86_64 40/188 Verifying : alternatives-1.20-2.el9.x86_64 41/188 Verifying : libattr-2.5.1-3.el9.x86_64 42/188 Verifying : bzip2-libs-1.0.8-8.el9.x86_64 43/188 Verifying : cpio-2.13-16.el9.x86_64 44/188 Verifying : findutils-1:4.8.0-5.el9.x86_64 45/188 Verifying : gdbm-libs-1:1.19-4.el9.x86_64 46/188 Verifying : ca-certificates-2022.2.54-90.2.el9_0.noarch 47/188 Verifying : cracklib-dicts-2.9.6-27.el9.x86_64 48/188 Verifying : xz-5.2.5-8.el9_0.x86_64 49/188 Verifying : xz-libs-5.2.5-8.el9_0.x86_64 50/188 Verifying : which-2.21-28.el9.x86_64 51/188 Verifying : p11-kit-trust-0.24.1-2.el9.x86_64 52/188 Verifying : pcre2-syntax-10.40-2.el9.noarch 53/188 Verifying : zstd-1.5.1-2.el9.x86_64 54/188 Verifying : diffutils-3.7-12.el9.x86_64 55/188 Verifying : gawk-5.1.0-6.el9.x86_64 56/188 Verifying : libcom_err-1.46.5-3.el9.x86_64 57/188 Verifying : pcre2-10.40-2.el9.x86_64 58/188 Verifying : tar-2:1.34-6.el9_1.x86_64 59/188 Verifying : openldap-2.6.2-3.el9.x86_64 60/188 Verifying : libtasn1-4.16.0-8.el9_1.x86_64 61/188 Verifying : audit-libs-3.0.7-103.el9.x86_64 62/188 Verifying : bash-5.1.8-6.el9_1.x86_64 63/188 Verifying : krb5-libs-1.20.1-8.el9.x86_64 64/188 Verifying : tzdata-2023c-1.el9.noarch 65/188 Verifying : gzip-1.12-1.el9.x86_64 66/188 Verifying : sqlite-libs-3.34.1-6.el9_1.x86_64 67/188 Verifying : libselinux-3.5-1.el9.x86_64 68/188 Verifying : cyrus-sasl-lib-2.1.27-21.el9.x86_64 69/188 Verifying : libxml2-2.9.13-3.el9_1.x86_64 70/188 Verifying : keyutils-libs-1.6.3-1.el9.x86_64 71/188 Verifying : systemd-libs-252-13.el9_2.x86_64 72/188 Verifying : glibc-2.34-60.el9.x86_64 73/188 Verifying : elfutils-0.188-3.el9.x86_64 74/188 Verifying : libgomp-11.3.1-4.3.el9.x86_64 75/188 Verifying : pkgconf-pkg-config-1.7.3-10.el9.x86_64 76/188 Verifying : setup-2.13.7-9.el9.noarch 77/188 Verifying : redhat-release-9.2-0.13.el9.x86_64 78/188 Verifying : libsemanage-3.5-1.el9.x86_64 79/188 Verifying : shadow-utils-2:4.9-6.el9.x86_64 80/188 Verifying : libstdc++-11.3.1-4.3.el9.x86_64 81/188 Verifying : libssh-0.10.4-8.el9.x86_64 82/188 Verifying : libgcc-11.3.1-4.3.el9.x86_64 83/188 Verifying : binutils-2.35.2-37.el9.x86_64 84/188 Verifying : glibc-common-2.34-60.el9.x86_64 85/188 Verifying : elfutils-libs-0.188-3.el9.x86_64 86/188 Verifying : elfutils-default-yama-scope-0.188-3.el9.noarch 87/188 Verifying : libarchive-3.5.3-4.el9.x86_64 88/188 Verifying : rpm-libs-4.16.1.3-22.el9.x86_64 89/188 Verifying : glibc-gconv-extra-2.34-60.el9.x86_64 90/188 Verifying : elfutils-debuginfod-client-0.188-3.el9.x86_64 91/188 Verifying : openssl-1:3.0.7-6.el9_2.x86_64 92/188 Verifying : pkgconf-1.7.3-10.el9.x86_64 93/188 Verifying : libssh-config-0.10.4-8.el9.noarch 94/188 Verifying : coreutils-8.32-34.el9.x86_64 95/188 Verifying : zlib-1.2.11-39.el9.x86_64 96/188 Verifying : rpm-4.16.1.3-22.el9.x86_64 97/188 Verifying : coreutils-common-8.32-34.el9.x86_64 98/188 Verifying : libsepol-3.5-1.el9.x86_64 99/188 Verifying : crypto-policies-20221215-1.git9a18988.el9.noarch 100/188 Verifying : binutils-gold-2.35.2-37.el9.x86_64 101/188 Verifying : glibc-minimal-langpack-2.34-60.el9.x86_64 102/188 Verifying : file-libs-5.39-12.el9.x86_64 103/188 Verifying : rpm-build-libs-4.16.1.3-22.el9.x86_64 104/188 Verifying : pkgconf-m4-1.7.3-10.el9.noarch 105/188 Verifying : openssl-libs-1:3.0.7-6.el9_2.x86_64 106/188 Verifying : lua-libs-5.4.4-3.el9.x86_64 107/188 Verifying : elfutils-libelf-0.188-3.el9.x86_64 108/188 Verifying : libpkgconf-1.7.3-10.el9.x86_64 109/188 Verifying : zip-3.0-35.el9.x86_64 110/188 Verifying : file-5.39-12.el9.x86_64 111/188 Verifying : pam-1.5.1-14.el9.x86_64 112/188 Verifying : libfdisk-2.37.4-11.el9_2.x86_64 113/188 Verifying : libcurl-7.76.1-23.el9_2.1.x86_64 114/188 Verifying : libgcrypt-1.10.0-10.el9_2.x86_64 115/188 Verifying : libblkid-2.37.4-11.el9_2.x86_64 116/188 Verifying : curl-7.76.1-23.el9_2.1.x86_64 117/188 Verifying : libmount-2.37.4-11.el9_2.x86_64 118/188 Verifying : libsmartcols-2.37.4-11.el9_2.x86_64 119/188 Verifying : util-linux-core-2.37.4-11.el9_2.x86_64 120/188 Verifying : util-linux-2.37.4-11.el9_2.x86_64 121/188 Verifying : libuuid-2.37.4-11.el9_2.x86_64 122/188 Verifying : lua-srpm-macros-1-6.el9.noarch 123/188 Verifying : rust-srpm-macros-17-4.el9.noarch 124/188 Verifying : ghc-srpm-macros-1.5.0-6.el9.noarch 125/188 Verifying : perl-Pod-Simple-1:3.42-4.el9.noarch 126/188 Verifying : perl-Term-Cap-1.17-460.el9.noarch 127/188 Verifying : perl-Encode-4:3.08-462.el9.x86_64 128/188 Verifying : perl-Time-Local-2:1.300-7.el9.noarch 129/188 Verifying : perl-Pod-Escapes-1:1.07-460.el9.noarch 130/188 Verifying : python-srpm-macros-3.9-52.el9.noarch 131/188 Verifying : perl-podlators-1:4.14-460.el9.noarch 132/188 Verifying : perl-Storable-1:3.21-460.el9.x86_64 133/188 Verifying : perl-srpm-macros-1-41.el9.noarch 134/188 Verifying : perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch 135/188 Verifying : dwz-0.14-3.el9.x86_64 136/188 Verifying : perl-MIME-Base64-3.16-4.el9.x86_64 137/188 Verifying : perl-File-Temp-1:0.231.100-4.el9.noarch 138/188 Verifying : perl-Exporter-5.74-461.el9.noarch 139/188 Verifying : perl-parent-1:0.238-460.el9.noarch 140/188 Verifying : perl-Getopt-Long-1:2.52-4.el9.noarch 141/188 Verifying : perl-Socket-4:2.031-4.el9.x86_64 142/188 Verifying : openblas-srpm-macros-2-11.el9.noarch 143/188 Verifying : perl-Term-ANSIColor-5.01-461.el9.noarch 144/188 Verifying : perl-Scalar-List-Utils-4:1.56-461.el9.x86_64 145/188 Verifying : perl-constant-1.33-461.el9.noarch 146/188 Verifying : perl-File-Path-2.18-4.el9.noarch 147/188 Verifying : efi-srpm-macros-6-2.el9_0.noarch 148/188 Verifying : perl-Text-ParseWords-3.30-460.el9.noarch 149/188 Verifying : perl-HTTP-Tiny-0.076-460.el9.noarch 150/188 Verifying : perl-Pod-Usage-4:2.01-4.el9.noarch 151/188 Verifying : patch-2.7.6-16.el9.x86_64 152/188 Verifying : perl-Pod-Perldoc-3.28.01-461.el9.noarch 153/188 Verifying : fonts-srpm-macros-1:2.0.5-7.el9.1.noarch 154/188 Verifying : ocaml-srpm-macros-6-6.el9.noarch 155/188 Verifying : perl-Carp-1.50-460.el9.noarch 156/188 Verifying : perl-PathTools-3.78-461.el9.x86_64 157/188 Verifying : qt5-srpm-macros-5.15.3-1.el9.noarch 158/188 Verifying : gdb-minimal-10.2-10.el9.x86_64 159/188 Verifying : pyproject-srpm-macros-1.6.2-1.el9.noarch 160/188 Verifying : perl-Class-Struct-0.66-480.el9.noarch 161/188 Verifying : perl-overload-1.31-480.el9.noarch 162/188 Verifying : perl-libs-4:5.32.1-480.el9.x86_64 163/188 Verifying : go-srpm-macros-3.2.0-1.el9.noarch 164/188 Verifying : perl-Errno-1.30-480.el9.x86_64 165/188 Verifying : perl-Symbol-1.08-480.el9.noarch 166/188 Verifying : kernel-srpm-macros-1.0-12.el9.noarch 167/188 Verifying : perl-POSIX-1.94-480.el9.x86_64 168/188 Verifying : perl-File-stat-1.09-480.el9.noarch 169/188 Verifying : redhat-rpm-config-199-1.el9.noarch 170/188 Verifying : perl-overloading-0.02-480.el9.noarch 171/188 Verifying : perl-mro-1.23-480.el9.x86_64 172/188 Verifying : perl-IPC-Open3-1.21-480.el9.noarch 173/188 Verifying : perl-Fcntl-1.13-480.el9.x86_64 174/188 Verifying : perl-File-Basename-2.85-480.el9.noarch 175/188 Verifying : perl-interpreter-4:5.32.1-480.el9.x86_64 176/188 Verifying : perl-SelectSaver-1.02-480.el9.noarch 177/188 Verifying : rpm-build-4.16.1.3-22.el9.x86_64 178/188 Verifying : perl-Getopt-Std-1.12-480.el9.noarch 179/188 Verifying : perl-vars-1.05-480.el9.noarch 180/188 Verifying : perl-IO-1.43-480.el9.x86_64 181/188 Verifying : perl-if-0.60.800-480.el9.noarch 182/188 Verifying : perl-subs-1.03-480.el9.noarch 183/188 Verifying : ansible-srpm-macros-1-8.1.el9.noarch 184/188 Verifying : epel-rpm-macros-9-11.el9.noarch 185/188 Verifying : fpc-srpm-macros-1.3-7.el9.noarch 186/188 Verifying : go-srpm-macros-epel-1-8.el9.noarch 187/188 Verifying : rpmautospec-rpm-macros-0.3.5-1.el9.noarch 188/188 Installed products updated. Installed: alternatives-1.20-2.el9.x86_64 ansible-srpm-macros-1-8.1.el9.noarch audit-libs-3.0.7-103.el9.x86_64 basesystem-11-13.el9.noarch bash-5.1.8-6.el9_1.x86_64 binutils-2.35.2-37.el9.x86_64 binutils-gold-2.35.2-37.el9.x86_64 bzip2-1.0.8-8.el9.x86_64 bzip2-libs-1.0.8-8.el9.x86_64 ca-certificates-2022.2.54-90.2.el9_0.noarch coreutils-8.32-34.el9.x86_64 coreutils-common-8.32-34.el9.x86_64 cpio-2.13-16.el9.x86_64 cracklib-2.9.6-27.el9.x86_64 cracklib-dicts-2.9.6-27.el9.x86_64 crypto-policies-20221215-1.git9a18988.el9.noarch curl-7.76.1-23.el9_2.1.x86_64 cyrus-sasl-lib-2.1.27-21.el9.x86_64 diffutils-3.7-12.el9.x86_64 dwz-0.14-3.el9.x86_64 ed-1.14.2-12.el9.x86_64 efi-srpm-macros-6-2.el9_0.noarch elfutils-0.188-3.el9.x86_64 elfutils-debuginfod-client-0.188-3.el9.x86_64 elfutils-default-yama-scope-0.188-3.el9.noarch elfutils-libelf-0.188-3.el9.x86_64 elfutils-libs-0.188-3.el9.x86_64 epel-rpm-macros-9-11.el9.noarch file-5.39-12.el9.x86_64 file-libs-5.39-12.el9.x86_64 filesystem-3.16-2.el9.x86_64 findutils-1:4.8.0-5.el9.x86_64 fonts-srpm-macros-1:2.0.5-7.el9.1.noarch fpc-srpm-macros-1.3-7.el9.noarch gawk-5.1.0-6.el9.x86_64 gdb-minimal-10.2-10.el9.x86_64 gdbm-libs-1:1.19-4.el9.x86_64 ghc-srpm-macros-1.5.0-6.el9.noarch glibc-2.34-60.el9.x86_64 glibc-common-2.34-60.el9.x86_64 glibc-gconv-extra-2.34-60.el9.x86_64 glibc-minimal-langpack-2.34-60.el9.x86_64 gmp-1:6.2.0-10.el9.x86_64 go-srpm-macros-3.2.0-1.el9.noarch go-srpm-macros-epel-1-8.el9.noarch grep-3.6-5.el9.x86_64 groff-base-1.22.4-10.el9.x86_64 gzip-1.12-1.el9.x86_64 info-6.7-15.el9.x86_64 kernel-srpm-macros-1.0-12.el9.noarch keyutils-libs-1.6.3-1.el9.x86_64 krb5-libs-1.20.1-8.el9.x86_64 libacl-2.3.1-3.el9.x86_64 libarchive-3.5.3-4.el9.x86_64 libattr-2.5.1-3.el9.x86_64 libblkid-2.37.4-11.el9_2.x86_64 libbrotli-1.0.9-6.el9.x86_64 libcap-2.48-8.el9.x86_64 libcap-ng-0.8.2-7.el9.x86_64 libcom_err-1.46.5-3.el9.x86_64 libcurl-7.76.1-23.el9_2.1.x86_64 libdb-5.3.28-53.el9.x86_64 libeconf-0.4.1-2.el9.x86_64 libevent-2.1.12-6.el9.x86_64 libfdisk-2.37.4-11.el9_2.x86_64 libffi-3.4.2-7.el9.x86_64 libgcc-11.3.1-4.3.el9.x86_64 libgcrypt-1.10.0-10.el9_2.x86_64 libgomp-11.3.1-4.3.el9.x86_64 libgpg-error-1.42-5.el9.x86_64 libidn2-2.3.0-7.el9.x86_64 libmount-2.37.4-11.el9_2.x86_64 libnghttp2-1.43.0-5.el9.x86_64 libpkgconf-1.7.3-10.el9.x86_64 libpsl-0.21.1-5.el9.x86_64 libpwquality-1.4.4-8.el9.x86_64 libselinux-3.5-1.el9.x86_64 libsemanage-3.5-1.el9.x86_64 libsepol-3.5-1.el9.x86_64 libsigsegv-2.13-4.el9.x86_64 libsmartcols-2.37.4-11.el9_2.x86_64 libssh-0.10.4-8.el9.x86_64 libssh-config-0.10.4-8.el9.noarch libstdc++-11.3.1-4.3.el9.x86_64 libtasn1-4.16.0-8.el9_1.x86_64 libunistring-0.9.10-15.el9.x86_64 libutempter-1.2.1-6.el9.x86_64 libuuid-2.37.4-11.el9_2.x86_64 libverto-0.3.2-3.el9.x86_64 libxcrypt-4.4.18-3.el9.x86_64 libxml2-2.9.13-3.el9_1.x86_64 libzstd-1.5.1-2.el9.x86_64 lua-libs-5.4.4-3.el9.x86_64 lua-srpm-macros-1-6.el9.noarch lz4-libs-1.9.3-5.el9.x86_64 mpfr-4.1.0-7.el9.x86_64 ncurses-6.2-8.20210508.el9.x86_64 ncurses-base-6.2-8.20210508.el9.noarch ncurses-libs-6.2-8.20210508.el9.x86_64 ocaml-srpm-macros-6-6.el9.noarch openblas-srpm-macros-2-11.el9.noarch openldap-2.6.2-3.el9.x86_64 openssl-1:3.0.7-6.el9_2.x86_64 openssl-libs-1:3.0.7-6.el9_2.x86_64 p11-kit-0.24.1-2.el9.x86_64 p11-kit-trust-0.24.1-2.el9.x86_64 pam-1.5.1-14.el9.x86_64 patch-2.7.6-16.el9.x86_64 pcre-8.44-3.el9.3.x86_64 pcre2-10.40-2.el9.x86_64 pcre2-syntax-10.40-2.el9.noarch perl-Carp-1.50-460.el9.noarch perl-Class-Struct-0.66-480.el9.noarch perl-Encode-4:3.08-462.el9.x86_64 perl-Errno-1.30-480.el9.x86_64 perl-Exporter-5.74-461.el9.noarch perl-Fcntl-1.13-480.el9.x86_64 perl-File-Basename-2.85-480.el9.noarch perl-File-Path-2.18-4.el9.noarch perl-File-Temp-1:0.231.100-4.el9.noarch perl-File-stat-1.09-480.el9.noarch perl-Getopt-Long-1:2.52-4.el9.noarch perl-Getopt-Std-1.12-480.el9.noarch perl-HTTP-Tiny-0.076-460.el9.noarch perl-IO-1.43-480.el9.x86_64 perl-IPC-Open3-1.21-480.el9.noarch perl-MIME-Base64-3.16-4.el9.x86_64 perl-POSIX-1.94-480.el9.x86_64 perl-PathTools-3.78-461.el9.x86_64 perl-Pod-Escapes-1:1.07-460.el9.noarch perl-Pod-Perldoc-3.28.01-461.el9.noarch perl-Pod-Simple-1:3.42-4.el9.noarch perl-Pod-Usage-4:2.01-4.el9.noarch perl-Scalar-List-Utils-4:1.56-461.el9.x86_64 perl-SelectSaver-1.02-480.el9.noarch perl-Socket-4:2.031-4.el9.x86_64 perl-Storable-1:3.21-460.el9.x86_64 perl-Symbol-1.08-480.el9.noarch perl-Term-ANSIColor-5.01-461.el9.noarch perl-Term-Cap-1.17-460.el9.noarch perl-Text-ParseWords-3.30-460.el9.noarch perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch perl-Time-Local-2:1.300-7.el9.noarch perl-constant-1.33-461.el9.noarch perl-if-0.60.800-480.el9.noarch perl-interpreter-4:5.32.1-480.el9.x86_64 perl-libs-4:5.32.1-480.el9.x86_64 perl-mro-1.23-480.el9.x86_64 perl-overload-1.31-480.el9.noarch perl-overloading-0.02-480.el9.noarch perl-parent-1:0.238-460.el9.noarch perl-podlators-1:4.14-460.el9.noarch perl-srpm-macros-1-41.el9.noarch perl-subs-1.03-480.el9.noarch perl-vars-1.05-480.el9.noarch pkgconf-1.7.3-10.el9.x86_64 pkgconf-m4-1.7.3-10.el9.noarch pkgconf-pkg-config-1.7.3-10.el9.x86_64 popt-1.18-8.el9.x86_64 publicsuffix-list-dafsa-20210518-3.el9.noarch pyproject-srpm-macros-1.6.2-1.el9.noarch python-srpm-macros-3.9-52.el9.noarch qt5-srpm-macros-5.15.3-1.el9.noarch readline-8.1-4.el9.x86_64 redhat-release-9.2-0.13.el9.x86_64 redhat-rpm-config-199-1.el9.noarch rpm-4.16.1.3-22.el9.x86_64 rpm-build-4.16.1.3-22.el9.x86_64 rpm-build-libs-4.16.1.3-22.el9.x86_64 rpm-libs-4.16.1.3-22.el9.x86_64 rpmautospec-rpm-macros-0.3.5-1.el9.noarch rust-srpm-macros-17-4.el9.noarch sed-4.8-9.el9.x86_64 setup-2.13.7-9.el9.noarch shadow-utils-2:4.9-6.el9.x86_64 sqlite-libs-3.34.1-6.el9_1.x86_64 systemd-libs-252-13.el9_2.x86_64 tar-2:1.34-6.el9_1.x86_64 tzdata-2023c-1.el9.noarch unzip-6.0-56.el9.x86_64 util-linux-2.37.4-11.el9_2.x86_64 util-linux-core-2.37.4-11.el9_2.x86_64 which-2.21-28.el9.x86_64 xz-5.2.5-8.el9_0.x86_64 xz-libs-5.2.5-8.el9_0.x86_64 zip-3.0-35.el9.x86_64 zlib-1.2.11-39.el9.x86_64 zstd-1.5.1-2.el9.x86_64 Complete! Finish: dnf install Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: libmount-2.37.4-11.el9_2.x86_64 libsepol-3.5-1.el9.x86_64 pcre2-10.40-2.el9.x86_64 findutils-4.8.0-5.el9.x86_64 perl-srpm-macros-1-41.el9.noarch libpwquality-1.4.4-8.el9.x86_64 mpfr-4.1.0-7.el9.x86_64 fonts-srpm-macros-2.0.5-7.el9.1.noarch cracklib-dicts-2.9.6-27.el9.x86_64 glibc-gconv-extra-2.34-60.el9.x86_64 pkgconf-m4-1.7.3-10.el9.noarch pkgconf-1.7.3-10.el9.x86_64 elfutils-debuginfod-client-0.188-3.el9.x86_64 libeconf-0.4.1-2.el9.x86_64 zlib-1.2.11-39.el9.x86_64 efi-srpm-macros-6-2.el9_0.noarch perl-Encode-3.08-462.el9.x86_64 xz-5.2.5-8.el9_0.x86_64 alternatives-1.20-2.el9.x86_64 perl-subs-1.03-480.el9.noarch perl-Carp-1.50-460.el9.noarch patch-2.7.6-16.el9.x86_64 perl-Pod-Usage-2.01-4.el9.noarch libfdisk-2.37.4-11.el9_2.x86_64 perl-File-Path-2.18-4.el9.noarch krb5-libs-1.20.1-8.el9.x86_64 publicsuffix-list-dafsa-20210518-3.el9.noarch libnghttp2-1.43.0-5.el9.x86_64 groff-base-1.22.4-10.el9.x86_64 kernel-srpm-macros-1.0-12.el9.noarch cpio-2.13-16.el9.x86_64 perl-Text-ParseWords-3.30-460.el9.noarch libpsl-0.21.1-5.el9.x86_64 xz-libs-5.2.5-8.el9_0.x86_64 tar-1.34-6.el9_1.x86_64 libbrotli-1.0.9-6.el9.x86_64 gpg-pubkey-5a6340b3-6229229e redhat-rpm-config-199-1.el9.noarch pcre-8.44-3.el9.3.x86_64 file-libs-5.39-12.el9.x86_64 binutils-gold-2.35.2-37.el9.x86_64 dwz-0.14-3.el9.x86_64 perl-Fcntl-1.13-480.el9.x86_64 keyutils-libs-1.6.3-1.el9.x86_64 perl-File-Temp-0.231.100-4.el9.noarch gpg-pubkey-fd431d51-4ae0493b perl-Storable-3.21-460.el9.x86_64 perl-POSIX-1.94-480.el9.x86_64 perl-Getopt-Std-1.12-480.el9.noarch libssh-0.10.4-8.el9.x86_64 rpm-libs-4.16.1.3-22.el9.x86_64 libcap-2.48-8.el9.x86_64 setup-2.13.7-9.el9.noarch perl-Errno-1.30-480.el9.x86_64 gawk-5.1.0-6.el9.x86_64 perl-Term-Cap-1.17-460.el9.noarch perl-Exporter-5.74-461.el9.noarch libffi-3.4.2-7.el9.x86_64 perl-HTTP-Tiny-0.076-460.el9.noarch perl-Pod-Simple-3.42-4.el9.noarch libidn2-2.3.0-7.el9.x86_64 util-linux-core-2.37.4-11.el9_2.x86_64 libdb-5.3.28-53.el9.x86_64 libzstd-1.5.1-2.el9.x86_64 libxml2-2.9.13-3.el9_1.x86_64 bzip2-libs-1.0.8-8.el9.x86_64 libsmartcols-2.37.4-11.el9_2.x86_64 sqlite-libs-3.34.1-6.el9_1.x86_64 perl-mro-1.23-480.el9.x86_64 libtasn1-4.16.0-8.el9_1.x86_64 gdbm-libs-1.19-4.el9.x86_64 gpg-pubkey-3228467c-613798eb lua-libs-5.4.4-3.el9.x86_64 util-linux-2.37.4-11.el9_2.x86_64 libcurl-7.76.1-23.el9_2.1.x86_64 glibc-minimal-langpack-2.34-60.el9.x86_64 ncurses-libs-6.2-8.20210508.el9.x86_64 libgpg-error-1.42-5.el9.x86_64 perl-File-stat-1.09-480.el9.noarch perl-parent-0.238-460.el9.noarch bash-5.1.8-6.el9_1.x86_64 libssh-config-0.10.4-8.el9.noarch info-6.7-15.el9.x86_64 libcom_err-1.46.5-3.el9.x86_64 perl-Term-ANSIColor-5.01-461.el9.noarch perl-IPC-Open3-1.21-480.el9.noarch perl-Scalar-List-Utils-1.56-461.el9.x86_64 systemd-libs-252-13.el9_2.x86_64 unzip-6.0-56.el9.x86_64 basesystem-11-13.el9.noarch libgomp-11.3.1-4.3.el9.x86_64 rpm-build-4.16.1.3-22.el9.x86_64 zstd-1.5.1-2.el9.x86_64 ncurses-base-6.2-8.20210508.el9.noarch libselinux-3.5-1.el9.x86_64 glibc-common-2.34-60.el9.x86_64 rpmautospec-rpm-macros-0.3.5-1.el9.noarch crypto-policies-20221215-1.git9a18988.el9.noarch bzip2-1.0.8-8.el9.x86_64 curl-7.76.1-23.el9_2.1.x86_64 go-srpm-macros-3.2.0-1.el9.noarch perl-overloading-0.02-480.el9.noarch qt5-srpm-macros-5.15.3-1.el9.noarch openssl-libs-3.0.7-6.el9_2.x86_64 coreutils-common-8.32-34.el9.x86_64 ed-1.14.2-12.el9.x86_64 elfutils-libs-0.188-3.el9.x86_64 libverto-0.3.2-3.el9.x86_64 ansible-srpm-macros-1-8.1.el9.noarch epel-rpm-macros-9-11.el9.noarch perl-if-0.60.800-480.el9.noarch rpm-4.16.1.3-22.el9.x86_64 perl-Time-Local-1.300-7.el9.noarch which-2.21-28.el9.x86_64 sed-4.8-9.el9.x86_64 python-srpm-macros-3.9-52.el9.noarch libattr-2.5.1-3.el9.x86_64 elfutils-0.188-3.el9.x86_64 shadow-utils-4.9-6.el9.x86_64 libacl-2.3.1-3.el9.x86_64 libsigsegv-2.13-4.el9.x86_64 perl-MIME-Base64-3.16-4.el9.x86_64 coreutils-8.32-34.el9.x86_64 elfutils-default-yama-scope-0.188-3.el9.noarch fpc-srpm-macros-1.3-7.el9.noarch libpkgconf-1.7.3-10.el9.x86_64 pyproject-srpm-macros-1.6.2-1.el9.noarch perl-overload-1.31-480.el9.noarch tzdata-2023c-1.el9.noarch gdb-minimal-10.2-10.el9.x86_64 popt-1.18-8.el9.x86_64 readline-8.1-4.el9.x86_64 perl-constant-1.33-461.el9.noarch libevent-2.1.12-6.el9.x86_64 rpm-build-libs-4.16.1.3-22.el9.x86_64 perl-interpreter-5.32.1-480.el9.x86_64 rust-srpm-macros-17-4.el9.noarch libcap-ng-0.8.2-7.el9.x86_64 perl-Socket-2.031-4.el9.x86_64 p11-kit-trust-0.24.1-2.el9.x86_64 libgcrypt-1.10.0-10.el9_2.x86_64 libstdc++-11.3.1-4.3.el9.x86_64 audit-libs-3.0.7-103.el9.x86_64 pcre2-syntax-10.40-2.el9.noarch libunistring-0.9.10-15.el9.x86_64 openblas-srpm-macros-2-11.el9.noarch libutempter-1.2.1-6.el9.x86_64 go-srpm-macros-epel-1-8.el9.noarch libxcrypt-4.4.18-3.el9.x86_64 redhat-release-9.2-0.13.el9.x86_64 libuuid-2.37.4-11.el9_2.x86_64 perl-File-Basename-2.85-480.el9.noarch cracklib-2.9.6-27.el9.x86_64 file-5.39-12.el9.x86_64 perl-libs-5.32.1-480.el9.x86_64 perl-Getopt-Long-2.52-4.el9.noarch binutils-2.35.2-37.el9.x86_64 glibc-2.34-60.el9.x86_64 perl-PathTools-3.78-461.el9.x86_64 ca-certificates-2022.2.54-90.2.el9_0.noarch filesystem-3.16-2.el9.x86_64 lz4-libs-1.9.3-5.el9.x86_64 perl-Class-Struct-0.66-480.el9.noarch gzip-1.12-1.el9.x86_64 perl-podlators-4.14-460.el9.noarch p11-kit-0.24.1-2.el9.x86_64 libarchive-3.5.3-4.el9.x86_64 diffutils-3.7-12.el9.x86_64 lua-srpm-macros-1-6.el9.noarch openssl-3.0.7-6.el9_2.x86_64 zip-3.0-35.el9.x86_64 elfutils-libelf-0.188-3.el9.x86_64 perl-Text-Tabs+Wrap-2013.0523-460.el9.noarch gmp-6.2.0-10.el9.x86_64 libgcc-11.3.1-4.3.el9.x86_64 ncurses-6.2-8.20210508.el9.x86_64 perl-IO-1.43-480.el9.x86_64 openldap-2.6.2-3.el9.x86_64 libsemanage-3.5-1.el9.x86_64 ocaml-srpm-macros-6-6.el9.noarch perl-SelectSaver-1.02-480.el9.noarch perl-Pod-Escapes-1.07-460.el9.noarch grep-3.6-5.el9.x86_64 pkgconf-pkg-config-1.7.3-10.el9.x86_64 perl-Symbol-1.08-480.el9.noarch pam-1.5.1-14.el9.x86_64 cyrus-sasl-lib-2.1.27-21.el9.x86_64 ghc-srpm-macros-1.5.0-6.el9.noarch perl-vars-1.05-480.el9.noarch perl-Pod-Perldoc-3.28.01-461.el9.noarch libblkid-2.37.4-11.el9_2.x86_64 Start: buildsrpm Start: rpmbuild -bs warning: Macro expanded in comment on line 62: %{?_isa} Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1644451200 Wrote: /builddir/build/SRPMS/pymol-2.5.0-3.1.TMM.el9.src.rpm Finish: rpmbuild -bs cp: ‘var/lib/mock/rhel+epel-9-x86_64-1684328434.275329/root/var/log’: No such file or directory INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/rhel+epel-9-x86_64-1684328434.275329/root/var/log/dnf.rpm.log /var/lib/mock/rhel+epel-9-x86_64-1684328434.275329/root/var/log/dnf.librepo.log /var/lib/mock/rhel+epel-9-x86_64-1684328434.275329/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-z5ahxu9w/pymol/pymol.spec) Config(child) 1 minutes 23 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=18000): unbuffer mock --rebuild /var/lib/copr-rpmbuild/results/pymol-2.5.0-3.1.TMM.el9.src.rpm --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1684328434.275329 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 3.5 starting (python version = 3.11.0, NVR = mock-3.5-1.fc37)... Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/results/pymol-2.5.0-3.1.TMM.el9.src.rpm) Config(rhel+epel-9-x86_64) Start: clean chroot Finish: clean chroot Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1684328434.275329/root. INFO: reusing tmpfs at /var/lib/mock/rhel+epel-9-x86_64-bootstrap-1684328434.275329/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: enabled HW Info plugin Mock Version: 3.5 INFO: Mock Version: 3.5 Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/rhel+epel-9-x86_64-1684328434.275329/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: 3.5 INFO: Mock Version: 3.5 Start: dnf update No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 34 kB/s | 2.1 kB 00:00 Red Hat Enterprise Linux - BaseOS 14 kB/s | 4.1 kB 00:00 Red Hat Enterprise Linux - AppStream 12 kB/s | 4.5 kB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 25 kB/s | 4.5 kB 00:00 Extra Packages for Enterprise Linux 9 - x86_64 510 kB/s | 26 kB 00:00 Dependencies resolved. Nothing to do. Complete! Finish: dnf update Finish: chroot init Start: build phase for pymol-2.5.0-3.1.TMM.el9.src.rpm Start: build setup for pymol-2.5.0-3.1.TMM.el9.src.rpm warning: Macro expanded in comment on line 62: %{?_isa} Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1644451200 Wrote: /builddir/build/SRPMS/pymol-2.5.0-3.1.TMM.el9.src.rpm No matches found for the following disable plugin patterns: local, spacewalk, versionlock Updating Subscription Management repositories. Unable to read consumer identity This system is not registered with an entitlement server. You can use subscription-manager to register. Copr repository 35 kB/s | 2.1 kB 00:00 Red Hat Enterprise Linux - BaseOS 14 kB/s | 4.1 kB 00:00 Red Hat Enterprise Linux - AppStream 24 kB/s | 4.5 kB 00:00 Red Hat Enterprise Linux - CodeReady Linux Buil 8.4 kB/s | 4.5 kB 00:00 Extra Packages for Enterprise Linux 9 - x86_64 194 kB/s | 26 kB 00:00 Dependencies resolved. ================================================================================================== Package Arch Version Repository Size ================================================================================================== Installing: catch-devel x86_64 2.13.8-2.el9 epel 196 k desktop-file-utils x86_64 0.26-6.el9 appstream 78 k freeglut-devel x86_64 3.2.1-9.el9 appstream 149 k freetype-devel x86_64 2.10.4-9.el9 appstream 1.1 M gcc-c++ x86_64 11.3.1-4.3.el9 appstream 13 M glew-devel x86_64 2.2.0-2.el9 epel 217 k glm-devel noarch 0.9.9.8-3.el9 codeready-builder 330 k libappstream-glib x86_64 0.7.18-4.el9 appstream 400 k libpng-devel x86_64 2:1.6.37-12.el9 appstream 297 k libxml2-devel x86_64 2.9.13-3.el9_1 appstream 903 k mesa-libGL-devel x86_64 22.3.0-2.el9 appstream 30 k mmtf-cpp-devel x86_64 1.1.0-2.el9 copr_base 31 k msgpack-devel x86_64 3.1.0-9.el9 epel 312 k netcdf-devel x86_64 4.8.1-2.el9 epel 114 k python3-devel x86_64 3.9.16-1.el9 appstream 251 k python3-mmtf noarch 1.1.2-19.el9 copr_base 55 k python3-numpy x86_64 1:1.20.1-5.el9 appstream 5.1 M python3-pyside2-devel x86_64 1:5.15.7-1.el9 epel 199 k python3-qt5-devel x86_64 5.15.6-1.el9 codeready-builder 574 k python3-setuptools noarch 53.0.0-12.el9 baseos 948 k python3-simplejson x86_64 3.17.6-1.el9 epel 264 k Installing dependencies: adobe-source-code-pro-fonts noarch 2.030.1.050-12.el9.1 baseos 836 k alsa-lib x86_64 1.2.8-3.el9 appstream 521 k annobin x86_64 10.73-3.el9 appstream 965 k avahi-libs x86_64 0.8-12.el9 baseos 71 k bluez-libs x86_64 5.64-2.el9 baseos 85 k brotli x86_64 1.0.9-6.el9 appstream 314 k brotli-devel x86_64 1.0.9-6.el9 appstream 36 k bzip2-devel x86_64 1.0.8-8.el9 appstream 216 k cairo x86_64 1.17.4-7.el9 appstream 664 k cairo-gobject x86_64 1.17.4-7.el9 appstream 20 k checkpolicy x86_64 3.5-1.el9 appstream 351 k clang-libs x86_64 14.0.6-4.el9_1 appstream 23 M clang-resource-filesystem x86_64 14.0.6-4.el9_1 appstream 11 k cmake x86_64 3.20.2-8.el9 appstream 6.7 M cmake-data noarch 3.20.2-8.el9 appstream 2.1 M cmake-filesystem x86_64 3.20.2-8.el9 appstream 23 k cmake-rpm-macros noarch 3.20.2-8.el9 appstream 13 k cpp x86_64 11.3.1-4.3.el9 appstream 11 M crypto-policies-scripts noarch 20221215-1.git9a18988.el9 baseos 97 k cups-libs x86_64 1:2.3.3op2-16.el9 baseos 267 k dbus-libs x86_64 1:1.12.20-7.el9_1 baseos 155 k dejavu-sans-fonts noarch 2.37-18.el9 baseos 1.3 M emacs-filesystem noarch 1:27.2-8.el9_2.1 appstream 9.6 k environment-modules x86_64 5.0.1-2.el9 baseos 496 k expat x86_64 2.5.0-1.el9 baseos 120 k fdk-aac-free x86_64 2.0.0-8.el9 appstream 327 k flac-libs x86_64 1.3.3-10.el9 appstream 223 k flexiblas x86_64 3.0.4-8.el9 appstream 34 k flexiblas-netlib x86_64 3.0.4-8.el9 appstream 3.0 M flexiblas-openblas-openmp x86_64 3.0.4-8.el9 appstream 19 k fontconfig x86_64 2.14.0-2.el9_1 appstream 301 k fonts-filesystem noarch 1:2.0.5-7.el9.1 baseos 11 k freeglut x86_64 3.2.1-9.el9 appstream 193 k freetype x86_64 2.10.4-9.el9 baseos 391 k fribidi x86_64 1.0.10-6.el9.2 appstream 89 k gcc x86_64 11.3.1-4.3.el9 appstream 32 M gcc-gfortran x86_64 11.3.1-4.3.el9 appstream 13 M gcc-plugin-annobin x86_64 11.3.1-4.3.el9 appstream 66 k gcc-toolset-12-binutils x86_64 2.38-16.el9 appstream 5.5 M gcc-toolset-12-binutils-gold x86_64 2.38-16.el9 appstream 781 k gcc-toolset-12-gcc x86_64 12.2.1-7.4.el9 appstream 43 M gcc-toolset-12-gcc-c++ x86_64 12.2.1-7.4.el9 appstream 13 M gcc-toolset-12-libstdc++-devel x86_64 12.2.1-7.4.el9 appstream 3.3 M gcc-toolset-12-runtime x86_64 12.0-6.el9 appstream 62 k gdk-pixbuf2 x86_64 2.42.6-3.el9 appstream 496 k gl-manpages noarch 1.1-24.20190306.el9 appstream 1.2 M glib-networking x86_64 2.68.3-3.el9 baseos 190 k glib2 x86_64 2.68.4-6.el9 baseos 2.6 M glib2-devel x86_64 2.68.4-6.el9 appstream 557 k glibc-devel x86_64 2.34-60.el9 appstream 54 k glibc-headers x86_64 2.34-60.el9 appstream 556 k glx-utils x86_64 8.4.0-12.20210504git0f9e7d9.el9 appstream 44 k gnutls x86_64 3.7.6-20.el9_2 baseos 1.0 M graphene x86_64 1.10.6-2.el9 appstream 67 k graphite2 x86_64 1.3.14-9.el9 baseos 98 k graphite2-devel x86_64 1.3.14-9.el9 appstream 24 k gsettings-desktop-schemas x86_64 40.0-6.el9 baseos 688 k gsm x86_64 1.0.19-6.el9 appstream 36 k gstreamer1 x86_64 1.18.4-4.el9 appstream 1.4 M gstreamer1-plugins-bad-free x86_64 1.18.4-6.el9 appstream 2.4 M gstreamer1-plugins-base x86_64 1.18.4-5.el9 appstream 2.1 M harfbuzz x86_64 2.7.4-8.el9 baseos 629 k harfbuzz-devel x86_64 2.7.4-8.el9 appstream 352 k harfbuzz-icu x86_64 2.7.4-8.el9 appstream 16 k hdf-libs x86_64 4.2.15-7.el9 epel 294 k hdf5 x86_64 1.12.1-7.el9.1 epel 2.2 M hdf5-devel x86_64 1.12.1-7.el9.1 epel 1.3 M hwdata noarch 0.348-9.7.el9 baseos 1.6 M iso-codes noarch 4.6.0-3.el9 appstream 3.5 M jasper-libs x86_64 2.0.28-3.el9 appstream 154 k jbigkit-libs x86_64 2.1-23.el9 appstream 56 k json-glib x86_64 1.6.6-1.el9 baseos 167 k kernel-headers x86_64 5.14.0-284.11.1.el9_2 appstream 5.0 M langpacks-core-font-en noarch 3.0-16.el9 appstream 11 k lcms2 x86_64 2.12-3.el9 appstream 169 k less x86_64 590-1.el9_0 baseos 166 k libGLEW x86_64 2.2.0-2.el9 epel 173 k libICE x86_64 1.0.10-8.el9 appstream 73 k libSM x86_64 1.2.3-10.el9 appstream 44 k libX11 x86_64 1.7.0-7.el9 appstream 648 k libX11-common noarch 1.7.0-7.el9 appstream 210 k libX11-devel x86_64 1.7.0-7.el9 appstream 1.1 M libX11-xcb x86_64 1.7.0-7.el9 appstream 14 k libXau x86_64 1.0.9-8.el9 appstream 34 k libXau-devel x86_64 1.0.9-8.el9 appstream 17 k libXcomposite x86_64 0.4.5-7.el9 appstream 26 k libXdamage x86_64 1.1.5-7.el9 appstream 25 k libXext x86_64 1.3.4-8.el9 appstream 42 k libXfixes x86_64 5.0.3-16.el9 appstream 22 k libXft x86_64 2.3.3-8.el9 appstream 64 k libXi x86_64 1.7.10-8.el9 appstream 41 k libXrandr x86_64 1.5.2-8.el9 appstream 30 k libXrender x86_64 0.9.10-16.el9 appstream 30 k libXtst x86_64 1.2.3-16.el9 appstream 23 k libXv x86_64 1.0.11-16.el9 appstream 21 k libXxf86vm x86_64 1.1.4-18.el9 appstream 21 k libaec x86_64 1.0.6-1.el9 epel 41 k libaec-devel x86_64 1.0.6-1.el9 epel 12 k libasyncns x86_64 0.8-22.el9 appstream 32 k libblkid-devel x86_64 2.37.4-11.el9_2 appstream 19 k libcurl-devel x86_64 7.76.1-23.el9_2.1 appstream 981 k libdatrie x86_64 0.2.13-4.el9 appstream 34 k libdrm x86_64 2.4.114-1.el9 appstream 164 k libdrm-devel x86_64 2.4.114-1.el9 appstream 178 k libdvdnav x86_64 6.1.0-4.el9 appstream 58 k libdvdread x86_64 6.1.1-4.el9 appstream 76 k libedit x86_64 3.1-37.20210216cvs.el9 baseos 108 k libevdev x86_64 1.11.0-3.el9 appstream 47 k libffi-devel x86_64 3.4.2-7.el9 appstream 32 k libgfortran x86_64 11.3.1-4.3.el9 baseos 821 k libglvnd x86_64 1:1.3.4-1.el9 appstream 137 k libglvnd-core-devel x86_64 1:1.3.4-1.el9 appstream 19 k libglvnd-devel x86_64 1:1.3.4-1.el9 appstream 165 k libglvnd-egl x86_64 1:1.3.4-1.el9 appstream 39 k libglvnd-gles x86_64 1:1.3.4-1.el9 appstream 34 k libglvnd-glx x86_64 1:1.3.4-1.el9 appstream 147 k libglvnd-opengl x86_64 1:1.3.4-1.el9 appstream 45 k libgudev x86_64 237-1.el9 baseos 38 k libicu x86_64 67.1-9.el9 baseos 9.6 M libicu-devel x86_64 67.1-9.el9 appstream 943 k libinput x86_64 1.19.3-3.el9 appstream 212 k libjpeg-turbo x86_64 2.0.90-6.el9_1 appstream 178 k libmng x86_64 2.0.3-17.el9 appstream 190 k libmount-devel x86_64 2.37.4-11.el9_2 appstream 20 k libmpc x86_64 1.2.1-4.el9 appstream 65 k libogg x86_64 2:1.3.4-6.el9 appstream 36 k libpciaccess x86_64 0.16-6.el9 baseos 30 k libpciaccess-devel x86_64 0.16-6.el9 appstream 14 k libpipeline x86_64 1.5.3-4.el9 baseos 52 k libpng x86_64 2:1.6.37-12.el9 baseos 119 k libproxy x86_64 0.4.15-35.el9 baseos 78 k libquadmath x86_64 11.3.1-4.3.el9 baseos 216 k libquadmath-devel x86_64 11.3.1-4.3.el9 appstream 56 k librsvg2 x86_64 2.50.7-1.el9 appstream 3.4 M libselinux-devel x86_64 3.5-1.el9 appstream 164 k libselinux-utils x86_64 3.5-1.el9 baseos 188 k libsepol-devel x86_64 3.5-1.el9 appstream 52 k libsndfile x86_64 1.0.31-7.el9 appstream 209 k libsoup x86_64 2.72.0-8.el9 appstream 409 k libsrtp x86_64 2.3.0-7.el9 appstream 61 k libstdc++-devel x86_64 11.3.1-4.3.el9 appstream 2.4 M libstemmer x86_64 0-18.585svn.el9 appstream 85 k libthai x86_64 0.1.28-8.el9 appstream 211 k libtheora x86_64 1:1.1.1-31.el9 appstream 167 k libtiff x86_64 4.4.0-7.el9 appstream 200 k libtirpc x86_64 1.3.3-1.el9 baseos 96 k libusbx x86_64 1.0.26-1.el9 baseos 78 k libuv x86_64 1:1.42.0-1.el9 appstream 153 k libvisual x86_64 1:0.4.0-34.el9 appstream 147 k libvorbis x86_64 1:1.3.7-5.el9 appstream 197 k libwacom x86_64 1.12.1-2.el9 appstream 50 k libwacom-data noarch 1.12.1-2.el9 appstream 197 k libwayland-client x86_64 1.21.0-1.el9 appstream 35 k libwayland-cursor x86_64 1.21.0-1.el9 appstream 21 k libwayland-egl x86_64 1.21.0-1.el9 appstream 14 k libwayland-server x86_64 1.21.0-1.el9 appstream 43 k libwebp x86_64 1.2.0-6.el9_1 appstream 281 k libxcb x86_64 1.13.1-9.el9 appstream 247 k libxcb-devel x86_64 1.13.1-9.el9 appstream 1.5 M libxcrypt-devel x86_64 4.4.18-3.el9 appstream 32 k libxkbcommon x86_64 1.0.3-4.el9 appstream 136 k libxkbcommon-x11 x86_64 1.0.3-4.el9 appstream 23 k libxshmfence x86_64 1.3-10.el9 appstream 14 k libxslt x86_64 1.1.34-9.el9 appstream 247 k llvm-libs x86_64 14.0.6-1.el9 appstream 20 M make x86_64 1:4.3-7.el9 baseos 542 k man-db x86_64 2.9.3-7.el9 baseos 1.2 M mesa-libEGL x86_64 22.3.0-2.el9 appstream 126 k mesa-libEGL-devel x86_64 22.3.0-2.el9 appstream 16 k mesa-libGL x86_64 22.3.0-2.el9 appstream 170 k mesa-libGLU x86_64 9.0.1-6.el9 appstream 149 k mesa-libGLU-devel x86_64 9.0.1-6.el9 appstream 15 k mesa-libgbm x86_64 22.3.0-2.el9 appstream 40 k mesa-libglapi x86_64 22.3.0-2.el9 appstream 51 k mesa-vulkan-drivers x86_64 22.1.5-2.el9 appstream 4.7 M msgpack x86_64 3.1.0-9.el9 epel 30 k mtdev x86_64 1.1.5-22.el9 appstream 23 k netcdf x86_64 4.8.1-2.el9 epel 731 k nettle x86_64 3.8-3.el9_0 baseos 552 k nspr x86_64 4.34.0-18.el9_1 appstream 138 k nss x86_64 3.79.0-18.el9_1 appstream 708 k nss-softokn x86_64 3.79.0-18.el9_1 appstream 386 k nss-softokn-freebl x86_64 3.79.0-18.el9_1 appstream 334 k nss-sysinit x86_64 3.79.0-18.el9_1 appstream 22 k nss-util x86_64 3.79.0-18.el9_1 appstream 91 k openal-soft x86_64 1.19.1-16.el9 appstream 539 k openblas x86_64 0.3.21-2.el9 appstream 38 k openblas-openmp x86_64 0.3.21-2.el9 appstream 4.7 M opus x86_64 1.3.1-10.el9 appstream 201 k orc x86_64 0.4.31-6.el9 appstream 187 k pango x86_64 1.48.7-3.el9 appstream 306 k pciutils-libs x86_64 3.7.0-5.el9 baseos 43 k pcre-cpp x86_64 8.44-3.el9.3 appstream 28 k pcre-devel x86_64 8.44-3.el9.3 appstream 511 k pcre-utf16 x86_64 8.44-3.el9.3 appstream 188 k pcre-utf32 x86_64 8.44-3.el9.3 appstream 178 k pcre2-devel x86_64 10.40-2.el9 appstream 519 k pcre2-utf16 x86_64 10.40-2.el9 appstream 218 k pcre2-utf32 x86_64 10.40-2.el9 appstream 207 k perl-English noarch 1.11-480.el9 appstream 15 k perl-File-Find noarch 1.37-480.el9 appstream 27 k pixman x86_64 0.40.0-5.el9 appstream 272 k policycoreutils x86_64 3.5-1.el9 baseos 242 k policycoreutils-python-utils noarch 3.5-1.el9 appstream 81 k procps-ng x86_64 3.3.17-11.el9 baseos 350 k pulseaudio-libs x86_64 15.0-2.el9 appstream 683 k pyproject-rpm-macros noarch 1.6.2-1.el9 codeready-builder 43 k pyside2-tools x86_64 1:5.15.7-1.el9 epel 86 k python-qt5-rpm-macros noarch 5.15.6-1.el9 appstream 9.6 k python-rpm-macros noarch 3.9-52.el9 appstream 20 k python3 x86_64 3.9.16-1.el9 baseos 31 k python3-audit x86_64 3.0.7-103.el9 appstream 86 k python3-dbus x86_64 1.2.18-2.el9 baseos 148 k python3-distro noarch 1.5.0-7.el9 appstream 40 k python3-libs x86_64 3.9.16-1.el9 baseos 7.8 M python3-libselinux x86_64 3.5-1.el9 appstream 192 k python3-libsemanage x86_64 3.5-1.el9 appstream 82 k python3-msgpack x86_64 1.0.3-2.el9 epel 86 k python3-packaging noarch 20.9-5.el9 appstream 81 k python3-pip-wheel noarch 21.2.3-6.el9 baseos 1.1 M python3-policycoreutils noarch 3.5-1.el9 appstream 2.1 M python3-pyparsing noarch 2.4.7-9.el9 baseos 154 k python3-pyqt5-sip x86_64 12.9.1-1.el9 appstream 73 k python3-pyside2 x86_64 1:5.15.7-1.el9 epel 9.3 M python3-qt5 x86_64 5.15.6-1.el9 appstream 1.2 M python3-qt5-base x86_64 5.15.6-1.el9 appstream 3.3 M python3-rpm-generators noarch 12-8.el9 appstream 33 k python3-rpm-macros noarch 3.9-52.el9 appstream 16 k python3-setools x86_64 4.4.1-1.el9 baseos 600 k python3-setuptools-wheel noarch 53.0.0-12.el9 baseos 470 k python3-shiboken2 x86_64 1:5.15.7-1.el9 epel 219 k python3-shiboken2-devel x86_64 1:5.15.7-1.el9 epel 48 k qt5-qt3d x86_64 5.15.3-1.el9 copr_base 4.6 M qt5-qtbase x86_64 5.15.3-1.el9 appstream 3.7 M qt5-qtbase-common noarch 5.15.3-1.el9 appstream 13 k qt5-qtbase-devel x86_64 5.15.3-1.el9 appstream 3.7 M qt5-qtbase-gui x86_64 5.15.3-1.el9 appstream 6.3 M qt5-qtcharts x86_64 5.15.3-1.el9 epel 671 k qt5-qtconnectivity x86_64 5.15.3-1.el9 appstream 468 k qt5-qtdatavis3d x86_64 5.15.3-1.el9 epel 553 k qt5-qtdeclarative x86_64 5.15.3-1.el9 appstream 4.2 M qt5-qtgraphicaleffects x86_64 5.15.3-1.el9 appstream 125 k qt5-qtimageformats x86_64 5.15.3-1.el9 appstream 109 k qt5-qtlocation x86_64 5.15.3-1.el9 appstream 3.0 M qt5-qtmultimedia x86_64 5.15.3-1.el9 appstream 822 k qt5-qtquickcontrols2 x86_64 5.15.3-1.el9 appstream 1.7 M qt5-qtremoteobjects x86_64 5.15.3-1.el9 epel 365 k qt5-qtscript x86_64 5.15.3-1.el9 appstream 1.0 M qt5-qtscxml x86_64 5.15.3-1.el9 epel 283 k qt5-qtsensors x86_64 5.15.3-1.el9 appstream 234 k qt5-qtserialport x86_64 5.15.3-1.el9 appstream 69 k qt5-qtspeech x86_64 5.15.3-1.el9 epel 43 k qt5-qtsvg x86_64 5.15.3-1.el9 appstream 192 k qt5-qttools-common noarch 5.15.3-4.el9 appstream 12 k qt5-qttools-libs-designer x86_64 5.15.3-4.el9 appstream 2.7 M qt5-qttools-libs-help x86_64 5.15.3-4.el9 appstream 157 k qt5-qtwebchannel x86_64 5.15.3-1.el9 appstream 104 k qt5-qtwebengine x86_64 5.15.8-5.el9 epel 59 M qt5-qtwebsockets x86_64 5.15.3-1.el9 appstream 90 k qt5-qtx11extras x86_64 5.15.3-1.el9 appstream 38 k qt5-qtxmlpatterns x86_64 5.15.3-1.el9 appstream 1.0 M qt5-rpm-macros noarch 5.15.3-1.el9 appstream 12 k scl-utils x86_64 1:2.0.3-4.el9 appstream 41 k shared-mime-info x86_64 2.1-5.el9 baseos 561 k shiboken2 x86_64 1:5.15.7-1.el9 epel 638 k snappy x86_64 1.1.8-8.el9 baseos 37 k soundtouch x86_64 2.1.1-8.el9 appstream 77 k sysprof-capture-devel x86_64 3.40.1-3.el9 appstream 64 k tcl x86_64 1:8.6.10-7.el9 baseos 1.1 M valgrind x86_64 1:3.19.0-3.el9 appstream 4.8 M valgrind-devel x86_64 1:3.19.0-3.el9 appstream 51 k vim-filesystem noarch 2:8.2.2637-20.el9_1 baseos 22 k vulkan-headers noarch 1.3.239.0-2.el9 appstream 1.0 M vulkan-loader x86_64 1.3.239.0-1.el9 appstream 143 k vulkan-loader-devel x86_64 1.3.239.0-1.el9 appstream 9.7 k webrtc-audio-processing x86_64 0.3.1-8.el9 appstream 308 k xcb-util x86_64 0.4.0-19.el9 appstream 22 k xcb-util-image x86_64 0.4.0-19.el9 appstream 22 k xcb-util-keysyms x86_64 0.4.0-17.el9 appstream 16 k xcb-util-renderutil x86_64 0.3.9-20.el9 appstream 20 k xcb-util-wm x86_64 0.4.1-22.el9 appstream 35 k xkeyboard-config noarch 2.33-2.el9 appstream 866 k xml-common noarch 0.6.3-58.el9 appstream 36 k xorg-x11-proto-devel noarch 2021.4-2.el9 appstream 311 k xz-devel x86_64 5.2.5-8.el9_0 appstream 59 k zlib-devel x86_64 1.2.11-39.el9 appstream 47 k Transaction Summary ================================================================================================== Install 307 Packages Total download size: 418 M Installed size: 1.4 G Downloading Packages: (1/307): python3-mmtf-1.1.2-19.el9.noarch.rpm 519 kB/s | 55 kB 00:00 (2/307): mmtf-cpp-devel-1.1.0-2.el9.x86_64.rpm 226 kB/s | 31 kB 00:00 (3/307): qt5-qt3d-5.15.3-1.el9.x86_64.rpm 14 MB/s | 4.6 MB 00:00 (4/307): pciutils-libs-3.7.0-5.el9.x86_64.rpm 83 kB/s | 43 kB 00:00 (5/307): json-glib-1.6.6-1.el9.x86_64.rpm 285 kB/s | 167 kB 00:00 (6/307): libproxy-0.4.15-35.el9.x86_64.rpm 165 kB/s | 78 kB 00:00 (7/307): libgudev-237-1.el9.x86_64.rpm 231 kB/s | 38 kB 00:00 (8/307): python3-dbus-1.2.18-2.el9.x86_64.rpm 648 kB/s | 148 kB 00:00 (9/307): python3-pyparsing-2.4.7-9.el9.noarch.r 468 kB/s | 154 kB 00:00 (10/307): graphite2-1.3.14-9.el9.x86_64.rpm 229 kB/s | 98 kB 00:00 (11/307): make-4.3-7.el9.x86_64.rpm 1.6 MB/s | 542 kB 00:00 (12/307): libpng-1.6.37-12.el9.x86_64.rpm 414 kB/s | 119 kB 00:00 (13/307): libedit-3.1-37.20210216cvs.el9.x86_64 653 kB/s | 108 kB 00:00 (14/307): avahi-libs-0.8-12.el9.x86_64.rpm 526 kB/s | 71 kB 00:00 (15/307): libicu-67.1-9.el9.x86_64.rpm 16 MB/s | 9.6 MB 00:00 (16/307): python3-pip-wheel-21.2.3-6.el9.noarch 3.6 MB/s | 1.1 MB 00:00 (17/307): dejavu-sans-fonts-2.37-18.el9.noarch. 857 kB/s | 1.3 MB 00:01 (18/307): fonts-filesystem-2.0.5-7.el9.1.noarch 6.7 kB/s | 11 kB 00:01 (19/307): libusbx-1.0.26-1.el9.x86_64.rpm 473 kB/s | 78 kB 00:00 (20/307): nettle-3.8-3.el9_0.x86_64.rpm 4.1 MB/s | 552 kB 00:00 (21/307): libpciaccess-0.16-6.el9.x86_64.rpm 232 kB/s | 30 kB 00:00 (22/307): bluez-libs-5.64-2.el9.x86_64.rpm 889 kB/s | 85 kB 00:00 (23/307): snappy-1.1.8-8.el9.x86_64.rpm 186 kB/s | 37 kB 00:00 (24/307): glib-networking-2.68.3-3.el9.x86_64.r 978 kB/s | 190 kB 00:00 (25/307): libpipeline-1.5.3-4.el9.x86_64.rpm 193 kB/s | 52 kB 00:00 (26/307): cups-libs-2.3.3op2-16.el9.x86_64.rpm 762 kB/s | 267 kB 00:00 (27/307): less-590-1.el9_0.x86_64.rpm 1.3 MB/s | 166 kB 00:00 (28/307): freetype-2.10.4-9.el9.x86_64.rpm 2.4 MB/s | 391 kB 00:00 (29/307): dbus-libs-1.12.20-7.el9_1.x86_64.rpm 1.0 MB/s | 155 kB 00:00 (30/307): tcl-8.6.10-7.el9.x86_64.rpm 3.9 MB/s | 1.1 MB 00:00 (31/307): vim-filesystem-8.2.2637-20.el9_1.noar 100 kB/s | 22 kB 00:00 (32/307): harfbuzz-2.7.4-8.el9.x86_64.rpm 2.6 MB/s | 629 kB 00:00 (33/307): gsettings-desktop-schemas-40.0-6.el9. 3.6 MB/s | 688 kB 00:00 (34/307): environment-modules-5.0.1-2.el9.x86_6 3.5 MB/s | 496 kB 00:00 (35/307): python3-setools-4.4.1-1.el9.x86_64.rp 4.5 MB/s | 600 kB 00:00 (36/307): python3-setuptools-wheel-53.0.0-12.el 2.5 MB/s | 470 kB 00:00 (37/307): man-db-2.9.3-7.el9.x86_64.rpm 9.2 MB/s | 1.2 MB 00:00 (38/307): expat-2.5.0-1.el9.x86_64.rpm 1.0 MB/s | 120 kB 00:00 (39/307): python3-setuptools-53.0.0-12.el9.noar 5.0 MB/s | 948 kB 00:00 (40/307): shared-mime-info-2.1-5.el9.x86_64.rpm 5.2 MB/s | 561 kB 00:00 (41/307): libselinux-utils-3.5-1.el9.x86_64.rpm 1.8 MB/s | 188 kB 00:00 (42/307): policycoreutils-3.5-1.el9.x86_64.rpm 1.9 MB/s | 242 kB 00:00 (43/307): crypto-policies-scripts-20221215-1.gi 458 kB/s | 97 kB 00:00 (44/307): libquadmath-11.3.1-4.3.el9.x86_64.rpm 1.2 MB/s | 216 kB 00:00 (45/307): python3-libs-3.9.16-1.el9.x86_64.rpm 24 MB/s | 7.8 MB 00:00 (46/307): libtirpc-1.3.3-1.el9.x86_64.rpm 1.0 MB/s | 96 kB 00:00 (47/307): gnutls-3.7.6-20.el9_2.x86_64.rpm 2.8 MB/s | 1.0 MB 00:00 (48/307): adobe-source-code-pro-fonts-2.030.1.0 4.3 MB/s | 836 kB 00:00 (49/307): python3-3.9.16-1.el9.x86_64.rpm 248 kB/s | 31 kB 00:00 (50/307): hwdata-0.348-9.7.el9.noarch.rpm 5.9 MB/s | 1.6 MB 00:00 (51/307): libgfortran-11.3.1-4.3.el9.x86_64.rpm 3.9 MB/s | 821 kB 00:00 (52/307): procps-ng-3.3.17-11.el9.x86_64.rpm 1.3 MB/s | 350 kB 00:00 (53/307): pcre-utf32-8.44-3.el9.3.x86_64.rpm 1.1 MB/s | 178 kB 00:00 (54/307): glib2-2.68.4-6.el9.x86_64.rpm 7.8 MB/s | 2.6 MB 00:00 (55/307): libevdev-1.11.0-3.el9.x86_64.rpm 311 kB/s | 47 kB 00:00 (56/307): xorg-x11-proto-devel-2021.4-2.el9.noa 1.1 MB/s | 311 kB 00:00 (57/307): libogg-1.3.4-6.el9.x86_64.rpm 180 kB/s | 36 kB 00:00 (58/307): xcb-util-0.4.0-19.el9.x86_64.rpm 45 kB/s | 22 kB 00:00 (59/307): libxcb-devel-1.13.1-9.el9.x86_64.rpm 4.2 MB/s | 1.5 MB 00:00 (60/307): flexiblas-openblas-openmp-3.0.4-8.el9 120 kB/s | 19 kB 00:00 (61/307): brotli-1.0.9-6.el9.x86_64.rpm 955 kB/s | 314 kB 00:00 (62/307): libwacom-data-1.12.1-2.el9.noarch.rpm 1.0 MB/s | 197 kB 00:00 (63/307): libvorbis-1.3.7-5.el9.x86_64.rpm 410 kB/s 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libX11-devel-1.7.0-7.el9.x86_64.rpm 9.0 MB/s | 1.1 MB 00:00 (79/307): libsndfile-1.0.31-7.el9.x86_64.rpm 2.1 MB/s | 209 kB 00:00 (80/307): pixman-0.40.0-5.el9.x86_64.rpm 1.5 MB/s | 272 kB 00:00 (81/307): libX11-common-1.7.0-7.el9.noarch.rpm 1.8 MB/s | 210 kB 00:00 (82/307): libglvnd-opengl-1.3.4-1.el9.x86_64.rp 417 kB/s | 45 kB 00:00 (83/307): libXrandr-1.5.2-8.el9.x86_64.rpm 28 kB/s | 30 kB 00:01 (84/307): pulseaudio-libs-15.0-2.el9.x86_64.rpm 1.5 MB/s | 683 kB 00:00 (85/307): gl-manpages-1.1-24.20190306.el9.noarc 6.3 MB/s | 1.2 MB 00:00 (86/307): libglvnd-1.3.4-1.el9.x86_64.rpm 100 kB/s | 137 kB 00:01 (87/307): libXau-devel-1.0.9-8.el9.x86_64.rpm 127 kB/s | 17 kB 00:00 (88/307): libglvnd-glx-1.3.4-1.el9.x86_64.rpm 700 kB/s | 147 kB 00:00 (89/307): mesa-libGLU-9.0.1-6.el9.x86_64.rpm 749 kB/s | 149 kB 00:00 (90/307): libXft-2.3.3-8.el9.x86_64.rpm 577 kB/s | 64 kB 00:00 (91/307): pcre-devel-8.44-3.el9.3.x86_64.rpm 654 kB/s | 511 kB 00:00 (92/307): libdatrie-0.2.13-4.el9.x86_64.rpm 243 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soundtouch-2.1.1-8.el9.x86_64.rpm 862 kB/s | 77 kB 00:00 (108/307): lcms2-2.12-3.el9.x86_64.rpm 1.2 MB/s | 169 kB 00:00 (109/307): libappstream-glib-0.7.18-4.el9.x86_6 2.8 MB/s | 400 kB 00:00 (110/307): libxcrypt-devel-4.4.18-3.el9.x86_64. 61 kB/s | 32 kB 00:00 (111/307): gstreamer1-1.18.4-4.el9.x86_64.rpm 4.6 MB/s | 1.4 MB 00:00 (112/307): xcb-util-keysyms-0.4.0-17.el9.x86_64 154 kB/s | 16 kB 00:00 (113/307): python3-numpy-1.20.1-5.el9.x86_64.rp 15 MB/s | 5.1 MB 00:00 (114/307): libX11-xcb-1.7.0-7.el9.x86_64.rpm 29 kB/s | 14 kB 00:00 (115/307): libicu-devel-67.1-9.el9.x86_64.rpm 2.6 MB/s | 943 kB 00:00 (116/307): librsvg2-2.50.7-1.el9.x86_64.rpm 7.9 MB/s | 3.4 MB 00:00 (117/307): libxslt-1.1.34-9.el9.x86_64.rpm 1.3 MB/s | 247 kB 00:00 (118/307): libXi-1.7.10-8.el9.x86_64.rpm 143 kB/s | 41 kB 00:00 (119/307): libvisual-0.4.0-34.el9.x86_64.rpm 766 kB/s | 147 kB 00:00 (120/307): libxshmfence-1.3-10.el9.x86_64.rpm 99 kB/s | 14 kB 00:00 (121/307): python3-rpm-generators-12-8.el9.noar 175 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Running transaction test Transaction test succeeded. 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gstreamer1-plugins-bad-free-1.18.4-6.el9.x86_64 276/307 Installing : qt5-qtmultimedia-5.15.3-1.el9.x86_64 277/307 Installing : python3-qt5-5.15.6-1.el9.x86_64 278/307 Installing : vulkan-loader-devel-1.3.239.0-1.el9.x86_64 279/307 Installing : qt5-qtbase-devel-5.15.3-1.el9.x86_64 280/307 Installing : clang-libs-14.0.6-4.el9_1.x86_64 281/307 Installing : shiboken2-1:5.15.7-1.el9.x86_64 282/307 Installing : python3-shiboken2-devel-1:5.15.7-1.el9.x86_64 283/307 Installing : libproxy-0.4.15-35.el9.x86_64 284/307 Installing : glib-networking-2.68.3-3.el9.x86_64 285/307 Installing : libsoup-2.72.0-8.el9.x86_64 286/307 Installing : pciutils-libs-3.7.0-5.el9.x86_64 287/307 Installing : qt5-qtwebengine-5.15.8-5.el9.x86_64 288/307 Installing : python3-pyside2-1:5.15.7-1.el9.x86_64 289/307 Installing : python3-pyside2-devel-1:5.15.7-1.el9.x86_64 290/307 Installing : libappstream-glib-0.7.18-4.el9.x86_64 291/307 Installing : python3-qt5-devel-5.15.6-1.el9.x86_64 292/307 Installing : annobin-10.73-3.el9.x86_64 293/307 Running scriptlet: annobin-10.73-3.el9.x86_64 293/307 Installing : python3-mmtf-1.1.2-19.el9.noarch 294/307 Installing : python3-devel-3.9.16-1.el9.x86_64 295/307 Installing : python3-numpy-1:1.20.1-5.el9.x86_64 296/307 Installing : python3-simplejson-3.17.6-1.el9.x86_64 297/307 Installing : freeglut-devel-3.2.1-9.el9.x86_64 298/307 Installing : glew-devel-2.2.0-2.el9.x86_64 299/307 Installing : libxml2-devel-2.9.13-3.el9_1.x86_64 300/307 Installing : netcdf-devel-4.8.1-2.el9.x86_64 301/307 Installing : gcc-plugin-annobin-11.3.1-4.3.el9.x86_64 302/307 Running scriptlet: gcc-plugin-annobin-11.3.1-4.3.el9.x86_64 302/307 Installing : mmtf-cpp-devel-1.1.0-2.el9.x86_64 303/307 Installing : desktop-file-utils-0.26-6.el9.x86_64 304/307 Installing : pyproject-rpm-macros-1.6.2-1.el9.noarch 305/307 Installing : glm-devel-0.9.9.8-3.el9.noarch 306/307 Installing : catch-devel-2.13.8-2.el9.x86_64 307/307 Running scriptlet: fontconfig-2.14.0-2.el9_1.x86_64 307/307 Running scriptlet: crypto-policies-scripts-20221215-1.git9a18988.el 307/307 Running scriptlet: nss-3.79.0-18.el9_1.x86_64 307/307 Running scriptlet: catch-devel-2.13.8-2.el9.x86_64 307/307 Verifying : mmtf-cpp-devel-1.1.0-2.el9.x86_64 1/307 Verifying : python3-mmtf-1.1.2-19.el9.noarch 2/307 Verifying : qt5-qt3d-5.15.3-1.el9.x86_64 3/307 Verifying : json-glib-1.6.6-1.el9.x86_64 4/307 Verifying : pciutils-libs-3.7.0-5.el9.x86_64 5/307 Verifying : libproxy-0.4.15-35.el9.x86_64 6/307 Verifying : python3-dbus-1.2.18-2.el9.x86_64 7/307 Verifying : libgudev-237-1.el9.x86_64 8/307 Verifying : graphite2-1.3.14-9.el9.x86_64 9/307 Verifying : python3-pyparsing-2.4.7-9.el9.noarch 10/307 Verifying : make-1:4.3-7.el9.x86_64 11/307 Verifying : fonts-filesystem-1:2.0.5-7.el9.1.noarch 12/307 Verifying : libpng-2:1.6.37-12.el9.x86_64 13/307 Verifying : dejavu-sans-fonts-2.37-18.el9.noarch 14/307 Verifying : libedit-3.1-37.20210216cvs.el9.x86_64 15/307 Verifying : avahi-libs-0.8-12.el9.x86_64 16/307 Verifying : libicu-67.1-9.el9.x86_64 17/307 Verifying : python3-pip-wheel-21.2.3-6.el9.noarch 18/307 Verifying : libusbx-1.0.26-1.el9.x86_64 19/307 Verifying : nettle-3.8-3.el9_0.x86_64 20/307 Verifying : snappy-1.1.8-8.el9.x86_64 21/307 Verifying : libpciaccess-0.16-6.el9.x86_64 22/307 Verifying : bluez-libs-5.64-2.el9.x86_64 23/307 Verifying : cups-libs-1:2.3.3op2-16.el9.x86_64 24/307 Verifying : libpipeline-1.5.3-4.el9.x86_64 25/307 Verifying : glib-networking-2.68.3-3.el9.x86_64 26/307 Verifying : less-590-1.el9_0.x86_64 27/307 Verifying : tcl-1:8.6.10-7.el9.x86_64 28/307 Verifying : freetype-2.10.4-9.el9.x86_64 29/307 Verifying : dbus-libs-1:1.12.20-7.el9_1.x86_64 30/307 Verifying : harfbuzz-2.7.4-8.el9.x86_64 31/307 Verifying : vim-filesystem-2:8.2.2637-20.el9_1.noarch 32/307 Verifying : gsettings-desktop-schemas-40.0-6.el9.x86_64 33/307 Verifying : python3-setuptools-wheel-53.0.0-12.el9.noarch 34/307 Verifying : environment-modules-5.0.1-2.el9.x86_64 35/307 Verifying : 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Verifying : graphite2-devel-1.3.14-9.el9.x86_64 75/307 Verifying : fdk-aac-free-2.0.0-8.el9.x86_64 76/307 Verifying : freeglut-3.2.1-9.el9.x86_64 77/307 Verifying : libXrandr-1.5.2-8.el9.x86_64 78/307 Verifying : libglvnd-1:1.3.4-1.el9.x86_64 79/307 Verifying : libX11-devel-1.7.0-7.el9.x86_64 80/307 Verifying : libsndfile-1.0.31-7.el9.x86_64 81/307 Verifying : pixman-0.40.0-5.el9.x86_64 82/307 Verifying : libX11-common-1.7.0-7.el9.noarch 83/307 Verifying : libglvnd-opengl-1:1.3.4-1.el9.x86_64 84/307 Verifying : pulseaudio-libs-15.0-2.el9.x86_64 85/307 Verifying : pcre-devel-8.44-3.el9.3.x86_64 86/307 Verifying : gl-manpages-1.1-24.20190306.el9.noarch 87/307 Verifying : libXau-devel-1.0.9-8.el9.x86_64 88/307 Verifying : libglvnd-glx-1:1.3.4-1.el9.x86_64 89/307 Verifying : mesa-libGLU-9.0.1-6.el9.x86_64 90/307 Verifying : libXft-2.3.3-8.el9.x86_64 91/307 Verifying : libglvnd-egl-1:1.3.4-1.el9.x86_64 92/307 Verifying : libdatrie-0.2.13-4.el9.x86_64 93/307 Verifying : langpacks-core-font-en-3.0-16.el9.noarch 94/307 Verifying : flexiblas-3.0.4-8.el9.x86_64 95/307 Verifying : cairo-gobject-1.17.4-7.el9.x86_64 96/307 Verifying : brotli-devel-1.0.9-6.el9.x86_64 97/307 Verifying : bzip2-devel-1.0.8-8.el9.x86_64 98/307 Verifying : libmpc-1.2.1-4.el9.x86_64 99/307 Verifying : libmng-2.0.3-17.el9.x86_64 100/307 Verifying : libICE-1.0.10-8.el9.x86_64 101/307 Verifying : python3-distro-1.5.0-7.el9.noarch 102/307 Verifying : python3-rpm-macros-3.9-52.el9.noarch 103/307 Verifying : glx-utils-8.4.0-12.20210504git0f9e7d9.el9.x86_64 104/307 Verifying : libxcrypt-devel-4.4.18-3.el9.x86_64 105/307 Verifying : pcre-cpp-8.44-3.el9.3.x86_64 106/307 Verifying : libpciaccess-devel-0.16-6.el9.x86_64 107/307 Verifying : lcms2-2.12-3.el9.x86_64 108/307 Verifying : soundtouch-2.1.1-8.el9.x86_64 109/307 Verifying : libappstream-glib-0.7.18-4.el9.x86_64 110/307 Verifying : gstreamer1-1.18.4-4.el9.x86_64 111/307 Verifying : python3-numpy-1:1.20.1-5.el9.x86_64 112/307 Verifying : libX11-xcb-1.7.0-7.el9.x86_64 113/307 Verifying : xcb-util-keysyms-0.4.0-17.el9.x86_64 114/307 Verifying : librsvg2-2.50.7-1.el9.x86_64 115/307 Verifying : libicu-devel-67.1-9.el9.x86_64 116/307 Verifying : libXi-1.7.10-8.el9.x86_64 117/307 Verifying : libvisual-1:0.4.0-34.el9.x86_64 118/307 Verifying : libxslt-1.1.34-9.el9.x86_64 119/307 Verifying : libxshmfence-1.3-10.el9.x86_64 120/307 Verifying : python3-rpm-generators-12-8.el9.noarch 121/307 Verifying : python-rpm-macros-3.9-52.el9.noarch 122/307 Verifying : libX11-1.7.0-7.el9.x86_64 123/307 Verifying : libglvnd-devel-1:1.3.4-1.el9.x86_64 124/307 Verifying : xcb-util-wm-0.4.1-22.el9.x86_64 125/307 Verifying : libpng-devel-2:1.6.37-12.el9.x86_64 126/307 Verifying : iso-codes-4.6.0-3.el9.noarch 127/307 Verifying : xcb-util-renderutil-0.3.9-20.el9.x86_64 128/307 Verifying : xcb-util-image-0.4.0-19.el9.x86_64 129/307 Verifying : libSM-1.2.3-10.el9.x86_64 130/307 Verifying : libsoup-2.72.0-8.el9.x86_64 131/307 Verifying : 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187/307 Verifying : qt5-qtbase-5.15.3-1.el9.x86_64 188/307 Verifying : qt5-qtxmlpatterns-5.15.3-1.el9.x86_64 189/307 Verifying : qt5-qtwebsockets-5.15.3-1.el9.x86_64 190/307 Verifying : flac-libs-1.3.3-10.el9.x86_64 191/307 Verifying : python3-qt5-base-5.15.6-1.el9.x86_64 192/307 Verifying : qt5-qtserialport-5.15.3-1.el9.x86_64 193/307 Verifying : qt5-qtbase-gui-5.15.3-1.el9.x86_64 194/307 Verifying : qt5-qtquickcontrols2-5.15.3-1.el9.x86_64 195/307 Verifying : mesa-vulkan-drivers-22.1.5-2.el9.x86_64 196/307 Verifying : qt5-qtconnectivity-5.15.3-1.el9.x86_64 197/307 Verifying : qt5-qtgraphicaleffects-5.15.3-1.el9.x86_64 198/307 Verifying : python3-qt5-5.15.6-1.el9.x86_64 199/307 Verifying : qt5-qtmultimedia-5.15.3-1.el9.x86_64 200/307 Verifying : harfbuzz-icu-2.7.4-8.el9.x86_64 201/307 Verifying : qt5-qtimageformats-5.15.3-1.el9.x86_64 202/307 Verifying : qt5-qtx11extras-5.15.3-1.el9.x86_64 203/307 Verifying : pcre2-devel-10.40-2.el9.x86_64 204/307 Verifying : python3-audit-3.0.7-103.el9.x86_64 205/307 Verifying : nss-sysinit-3.79.0-18.el9_1.x86_64 206/307 Verifying : libxml2-devel-2.9.13-3.el9_1.x86_64 207/307 Verifying : nss-3.79.0-18.el9_1.x86_64 208/307 Verifying : nss-softokn-3.79.0-18.el9_1.x86_64 209/307 Verifying : clang-resource-filesystem-14.0.6-4.el9_1.x86_64 210/307 Verifying : nss-util-3.79.0-18.el9_1.x86_64 211/307 Verifying : libwebp-1.2.0-6.el9_1.x86_64 212/307 Verifying : libjpeg-turbo-2.0.90-6.el9_1.x86_64 213/307 Verifying : fontconfig-2.14.0-2.el9_1.x86_64 214/307 Verifying : nspr-4.34.0-18.el9_1.x86_64 215/307 Verifying : nss-softokn-freebl-3.79.0-18.el9_1.x86_64 216/307 Verifying : clang-libs-14.0.6-4.el9_1.x86_64 217/307 Verifying : policycoreutils-python-utils-3.5-1.el9.noarch 218/307 Verifying : mesa-libglapi-22.3.0-2.el9.x86_64 219/307 Verifying : cpp-11.3.1-4.3.el9.x86_64 220/307 Verifying : libwayland-server-1.21.0-1.el9.x86_64 221/307 Verifying : libquadmath-devel-11.3.1-4.3.el9.x86_64 222/307 Verifying : qt5-qttools-common-5.15.3-4.el9.noarch 223/307 Verifying : gcc-plugin-annobin-11.3.1-4.3.el9.x86_64 224/307 Verifying : vulkan-loader-1.3.239.0-1.el9.x86_64 225/307 Verifying : alsa-lib-1.2.8-3.el9.x86_64 226/307 Verifying : perl-File-Find-1.37-480.el9.noarch 227/307 Verifying : cmake-rpm-macros-3.20.2-8.el9.noarch 228/307 Verifying : qt5-qttools-libs-help-5.15.3-4.el9.x86_64 229/307 Verifying : perl-English-1.11-480.el9.noarch 230/307 Verifying : mesa-libgbm-22.3.0-2.el9.x86_64 231/307 Verifying : gstreamer1-plugins-bad-free-1.18.4-6.el9.x86_64 232/307 Verifying : cmake-filesystem-3.20.2-8.el9.x86_64 233/307 Verifying : zlib-devel-1.2.11-39.el9.x86_64 234/307 Verifying : libsepol-devel-3.5-1.el9.x86_64 235/307 Verifying : mesa-libEGL-22.3.0-2.el9.x86_64 236/307 Verifying : libdrm-devel-2.4.114-1.el9.x86_64 237/307 Verifying : libwayland-egl-1.21.0-1.el9.x86_64 238/307 Verifying : gdk-pixbuf2-2.42.6-3.el9.x86_64 239/307 Verifying : scl-utils-1:2.0.3-4.el9.x86_64 240/307 Verifying : kernel-headers-5.14.0-284.11.1.el9_2.x86_64 241/307 Verifying : glibc-headers-2.34-60.el9.x86_64 242/307 Verifying : vulkan-headers-1.3.239.0-2.el9.noarch 243/307 Verifying : vulkan-loader-devel-1.3.239.0-1.el9.x86_64 244/307 Verifying : libinput-1.19.3-3.el9.x86_64 245/307 Verifying : gcc-11.3.1-4.3.el9.x86_64 246/307 Verifying : cmake-data-3.20.2-8.el9.noarch 247/307 Verifying : python3-policycoreutils-3.5-1.el9.noarch 248/307 Verifying : gcc-toolset-12-runtime-12.0-6.el9.x86_64 249/307 Verifying : pango-1.48.7-3.el9.x86_64 250/307 Verifying : python3-libselinux-3.5-1.el9.x86_64 251/307 Verifying : cmake-3.20.2-8.el9.x86_64 252/307 Verifying : python3-libsemanage-3.5-1.el9.x86_64 253/307 Verifying : libwayland-cursor-1.21.0-1.el9.x86_64 254/307 Verifying : gcc-toolset-12-libstdc++-devel-12.2.1-7.4.el9.x8 255/307 Verifying : gcc-c++-11.3.1-4.3.el9.x86_64 256/307 Verifying : gcc-toolset-12-gcc-c++-12.2.1-7.4.el9.x86_64 257/307 Verifying : openblas-openmp-0.3.21-2.el9.x86_64 258/307 Verifying : mesa-libEGL-devel-22.3.0-2.el9.x86_64 259/307 Verifying : mesa-libGL-devel-22.3.0-2.el9.x86_64 260/307 Verifying : openblas-0.3.21-2.el9.x86_64 261/307 Verifying : libselinux-devel-3.5-1.el9.x86_64 262/307 Verifying : gcc-gfortran-11.3.1-4.3.el9.x86_64 263/307 Verifying : libstdc++-devel-11.3.1-4.3.el9.x86_64 264/307 Verifying : libdrm-2.4.114-1.el9.x86_64 265/307 Verifying : checkpolicy-3.5-1.el9.x86_64 266/307 Verifying : libwayland-client-1.21.0-1.el9.x86_64 267/307 Verifying : mesa-libGL-22.3.0-2.el9.x86_64 268/307 Verifying : qt5-qttools-libs-designer-5.15.3-4.el9.x86_64 269/307 Verifying : python3-devel-3.9.16-1.el9.x86_64 270/307 Verifying : glib2-devel-2.68.4-6.el9.x86_64 271/307 Verifying : libtiff-4.4.0-7.el9.x86_64 272/307 Verifying : gcc-toolset-12-gcc-12.2.1-7.4.el9.x86_64 273/307 Verifying : glibc-devel-2.34-60.el9.x86_64 274/307 Verifying : libmount-devel-2.37.4-11.el9_2.x86_64 275/307 Verifying : emacs-filesystem-1:27.2-8.el9_2.1.noarch 276/307 Verifying : libcurl-devel-7.76.1-23.el9_2.1.x86_64 277/307 Verifying : libblkid-devel-2.37.4-11.el9_2.x86_64 278/307 Verifying : glm-devel-0.9.9.8-3.el9.noarch 279/307 Verifying : python3-qt5-devel-5.15.6-1.el9.x86_64 280/307 Verifying : pyproject-rpm-macros-1.6.2-1.el9.noarch 281/307 Verifying : catch-devel-2.13.8-2.el9.x86_64 282/307 Verifying : glew-devel-2.2.0-2.el9.x86_64 283/307 Verifying : hdf-libs-4.2.15-7.el9.x86_64 284/307 Verifying : hdf5-1.12.1-7.el9.1.x86_64 285/307 Verifying : hdf5-devel-1.12.1-7.el9.1.x86_64 286/307 Verifying : libGLEW-2.2.0-2.el9.x86_64 287/307 Verifying : libaec-1.0.6-1.el9.x86_64 288/307 Verifying : libaec-devel-1.0.6-1.el9.x86_64 289/307 Verifying : msgpack-3.1.0-9.el9.x86_64 290/307 Verifying : msgpack-devel-3.1.0-9.el9.x86_64 291/307 Verifying : netcdf-4.8.1-2.el9.x86_64 292/307 Verifying : netcdf-devel-4.8.1-2.el9.x86_64 293/307 Verifying : pyside2-tools-1:5.15.7-1.el9.x86_64 294/307 Verifying : python3-msgpack-1.0.3-2.el9.x86_64 295/307 Verifying : python3-pyside2-1:5.15.7-1.el9.x86_64 296/307 Verifying : python3-pyside2-devel-1:5.15.7-1.el9.x86_64 297/307 Verifying : python3-shiboken2-1:5.15.7-1.el9.x86_64 298/307 Verifying : python3-shiboken2-devel-1:5.15.7-1.el9.x86_64 299/307 Verifying : python3-simplejson-3.17.6-1.el9.x86_64 300/307 Verifying : qt5-qtcharts-5.15.3-1.el9.x86_64 301/307 Verifying : qt5-qtdatavis3d-5.15.3-1.el9.x86_64 302/307 Verifying : qt5-qtremoteobjects-5.15.3-1.el9.x86_64 303/307 Verifying : qt5-qtscxml-5.15.3-1.el9.x86_64 304/307 Verifying : qt5-qtspeech-5.15.3-1.el9.x86_64 305/307 Verifying : qt5-qtwebengine-5.15.8-5.el9.x86_64 306/307 Verifying : shiboken2-1:5.15.7-1.el9.x86_64 307/307 Installed products updated. Installed: adobe-source-code-pro-fonts-2.030.1.050-12.el9.1.noarch alsa-lib-1.2.8-3.el9.x86_64 annobin-10.73-3.el9.x86_64 avahi-libs-0.8-12.el9.x86_64 bluez-libs-5.64-2.el9.x86_64 brotli-1.0.9-6.el9.x86_64 brotli-devel-1.0.9-6.el9.x86_64 bzip2-devel-1.0.8-8.el9.x86_64 cairo-1.17.4-7.el9.x86_64 cairo-gobject-1.17.4-7.el9.x86_64 catch-devel-2.13.8-2.el9.x86_64 checkpolicy-3.5-1.el9.x86_64 clang-libs-14.0.6-4.el9_1.x86_64 clang-resource-filesystem-14.0.6-4.el9_1.x86_64 cmake-3.20.2-8.el9.x86_64 cmake-data-3.20.2-8.el9.noarch cmake-filesystem-3.20.2-8.el9.x86_64 cmake-rpm-macros-3.20.2-8.el9.noarch cpp-11.3.1-4.3.el9.x86_64 crypto-policies-scripts-20221215-1.git9a18988.el9.noarch cups-libs-1:2.3.3op2-16.el9.x86_64 dbus-libs-1:1.12.20-7.el9_1.x86_64 dejavu-sans-fonts-2.37-18.el9.noarch desktop-file-utils-0.26-6.el9.x86_64 emacs-filesystem-1:27.2-8.el9_2.1.noarch environment-modules-5.0.1-2.el9.x86_64 expat-2.5.0-1.el9.x86_64 fdk-aac-free-2.0.0-8.el9.x86_64 flac-libs-1.3.3-10.el9.x86_64 flexiblas-3.0.4-8.el9.x86_64 flexiblas-netlib-3.0.4-8.el9.x86_64 flexiblas-openblas-openmp-3.0.4-8.el9.x86_64 fontconfig-2.14.0-2.el9_1.x86_64 fonts-filesystem-1:2.0.5-7.el9.1.noarch freeglut-3.2.1-9.el9.x86_64 freeglut-devel-3.2.1-9.el9.x86_64 freetype-2.10.4-9.el9.x86_64 freetype-devel-2.10.4-9.el9.x86_64 fribidi-1.0.10-6.el9.2.x86_64 gcc-11.3.1-4.3.el9.x86_64 gcc-c++-11.3.1-4.3.el9.x86_64 gcc-gfortran-11.3.1-4.3.el9.x86_64 gcc-plugin-annobin-11.3.1-4.3.el9.x86_64 gcc-toolset-12-binutils-2.38-16.el9.x86_64 gcc-toolset-12-binutils-gold-2.38-16.el9.x86_64 gcc-toolset-12-gcc-12.2.1-7.4.el9.x86_64 gcc-toolset-12-gcc-c++-12.2.1-7.4.el9.x86_64 gcc-toolset-12-libstdc++-devel-12.2.1-7.4.el9.x86_64 gcc-toolset-12-runtime-12.0-6.el9.x86_64 gdk-pixbuf2-2.42.6-3.el9.x86_64 gl-manpages-1.1-24.20190306.el9.noarch glew-devel-2.2.0-2.el9.x86_64 glib-networking-2.68.3-3.el9.x86_64 glib2-2.68.4-6.el9.x86_64 glib2-devel-2.68.4-6.el9.x86_64 glibc-devel-2.34-60.el9.x86_64 glibc-headers-2.34-60.el9.x86_64 glm-devel-0.9.9.8-3.el9.noarch glx-utils-8.4.0-12.20210504git0f9e7d9.el9.x86_64 gnutls-3.7.6-20.el9_2.x86_64 graphene-1.10.6-2.el9.x86_64 graphite2-1.3.14-9.el9.x86_64 graphite2-devel-1.3.14-9.el9.x86_64 gsettings-desktop-schemas-40.0-6.el9.x86_64 gsm-1.0.19-6.el9.x86_64 gstreamer1-1.18.4-4.el9.x86_64 gstreamer1-plugins-bad-free-1.18.4-6.el9.x86_64 gstreamer1-plugins-base-1.18.4-5.el9.x86_64 harfbuzz-2.7.4-8.el9.x86_64 harfbuzz-devel-2.7.4-8.el9.x86_64 harfbuzz-icu-2.7.4-8.el9.x86_64 hdf-libs-4.2.15-7.el9.x86_64 hdf5-1.12.1-7.el9.1.x86_64 hdf5-devel-1.12.1-7.el9.1.x86_64 hwdata-0.348-9.7.el9.noarch iso-codes-4.6.0-3.el9.noarch jasper-libs-2.0.28-3.el9.x86_64 jbigkit-libs-2.1-23.el9.x86_64 json-glib-1.6.6-1.el9.x86_64 kernel-headers-5.14.0-284.11.1.el9_2.x86_64 langpacks-core-font-en-3.0-16.el9.noarch lcms2-2.12-3.el9.x86_64 less-590-1.el9_0.x86_64 libGLEW-2.2.0-2.el9.x86_64 libICE-1.0.10-8.el9.x86_64 libSM-1.2.3-10.el9.x86_64 libX11-1.7.0-7.el9.x86_64 libX11-common-1.7.0-7.el9.noarch libX11-devel-1.7.0-7.el9.x86_64 libX11-xcb-1.7.0-7.el9.x86_64 libXau-1.0.9-8.el9.x86_64 libXau-devel-1.0.9-8.el9.x86_64 libXcomposite-0.4.5-7.el9.x86_64 libXdamage-1.1.5-7.el9.x86_64 libXext-1.3.4-8.el9.x86_64 libXfixes-5.0.3-16.el9.x86_64 libXft-2.3.3-8.el9.x86_64 libXi-1.7.10-8.el9.x86_64 libXrandr-1.5.2-8.el9.x86_64 libXrender-0.9.10-16.el9.x86_64 libXtst-1.2.3-16.el9.x86_64 libXv-1.0.11-16.el9.x86_64 libXxf86vm-1.1.4-18.el9.x86_64 libaec-1.0.6-1.el9.x86_64 libaec-devel-1.0.6-1.el9.x86_64 libappstream-glib-0.7.18-4.el9.x86_64 libasyncns-0.8-22.el9.x86_64 libblkid-devel-2.37.4-11.el9_2.x86_64 libcurl-devel-7.76.1-23.el9_2.1.x86_64 libdatrie-0.2.13-4.el9.x86_64 libdrm-2.4.114-1.el9.x86_64 libdrm-devel-2.4.114-1.el9.x86_64 libdvdnav-6.1.0-4.el9.x86_64 libdvdread-6.1.1-4.el9.x86_64 libedit-3.1-37.20210216cvs.el9.x86_64 libevdev-1.11.0-3.el9.x86_64 libffi-devel-3.4.2-7.el9.x86_64 libgfortran-11.3.1-4.3.el9.x86_64 libglvnd-1:1.3.4-1.el9.x86_64 libglvnd-core-devel-1:1.3.4-1.el9.x86_64 libglvnd-devel-1:1.3.4-1.el9.x86_64 libglvnd-egl-1:1.3.4-1.el9.x86_64 libglvnd-gles-1:1.3.4-1.el9.x86_64 libglvnd-glx-1:1.3.4-1.el9.x86_64 libglvnd-opengl-1:1.3.4-1.el9.x86_64 libgudev-237-1.el9.x86_64 libicu-67.1-9.el9.x86_64 libicu-devel-67.1-9.el9.x86_64 libinput-1.19.3-3.el9.x86_64 libjpeg-turbo-2.0.90-6.el9_1.x86_64 libmng-2.0.3-17.el9.x86_64 libmount-devel-2.37.4-11.el9_2.x86_64 libmpc-1.2.1-4.el9.x86_64 libogg-2:1.3.4-6.el9.x86_64 libpciaccess-0.16-6.el9.x86_64 libpciaccess-devel-0.16-6.el9.x86_64 libpipeline-1.5.3-4.el9.x86_64 libpng-2:1.6.37-12.el9.x86_64 libpng-devel-2:1.6.37-12.el9.x86_64 libproxy-0.4.15-35.el9.x86_64 libquadmath-11.3.1-4.3.el9.x86_64 libquadmath-devel-11.3.1-4.3.el9.x86_64 librsvg2-2.50.7-1.el9.x86_64 libselinux-devel-3.5-1.el9.x86_64 libselinux-utils-3.5-1.el9.x86_64 libsepol-devel-3.5-1.el9.x86_64 libsndfile-1.0.31-7.el9.x86_64 libsoup-2.72.0-8.el9.x86_64 libsrtp-2.3.0-7.el9.x86_64 libstdc++-devel-11.3.1-4.3.el9.x86_64 libstemmer-0-18.585svn.el9.x86_64 libthai-0.1.28-8.el9.x86_64 libtheora-1:1.1.1-31.el9.x86_64 libtiff-4.4.0-7.el9.x86_64 libtirpc-1.3.3-1.el9.x86_64 libusbx-1.0.26-1.el9.x86_64 libuv-1:1.42.0-1.el9.x86_64 libvisual-1:0.4.0-34.el9.x86_64 libvorbis-1:1.3.7-5.el9.x86_64 libwacom-1.12.1-2.el9.x86_64 libwacom-data-1.12.1-2.el9.noarch libwayland-client-1.21.0-1.el9.x86_64 libwayland-cursor-1.21.0-1.el9.x86_64 libwayland-egl-1.21.0-1.el9.x86_64 libwayland-server-1.21.0-1.el9.x86_64 libwebp-1.2.0-6.el9_1.x86_64 libxcb-1.13.1-9.el9.x86_64 libxcb-devel-1.13.1-9.el9.x86_64 libxcrypt-devel-4.4.18-3.el9.x86_64 libxkbcommon-1.0.3-4.el9.x86_64 libxkbcommon-x11-1.0.3-4.el9.x86_64 libxml2-devel-2.9.13-3.el9_1.x86_64 libxshmfence-1.3-10.el9.x86_64 libxslt-1.1.34-9.el9.x86_64 llvm-libs-14.0.6-1.el9.x86_64 make-1:4.3-7.el9.x86_64 man-db-2.9.3-7.el9.x86_64 mesa-libEGL-22.3.0-2.el9.x86_64 mesa-libEGL-devel-22.3.0-2.el9.x86_64 mesa-libGL-22.3.0-2.el9.x86_64 mesa-libGL-devel-22.3.0-2.el9.x86_64 mesa-libGLU-9.0.1-6.el9.x86_64 mesa-libGLU-devel-9.0.1-6.el9.x86_64 mesa-libgbm-22.3.0-2.el9.x86_64 mesa-libglapi-22.3.0-2.el9.x86_64 mesa-vulkan-drivers-22.1.5-2.el9.x86_64 mmtf-cpp-devel-1.1.0-2.el9.x86_64 msgpack-3.1.0-9.el9.x86_64 msgpack-devel-3.1.0-9.el9.x86_64 mtdev-1.1.5-22.el9.x86_64 netcdf-4.8.1-2.el9.x86_64 netcdf-devel-4.8.1-2.el9.x86_64 nettle-3.8-3.el9_0.x86_64 nspr-4.34.0-18.el9_1.x86_64 nss-3.79.0-18.el9_1.x86_64 nss-softokn-3.79.0-18.el9_1.x86_64 nss-softokn-freebl-3.79.0-18.el9_1.x86_64 nss-sysinit-3.79.0-18.el9_1.x86_64 nss-util-3.79.0-18.el9_1.x86_64 openal-soft-1.19.1-16.el9.x86_64 openblas-0.3.21-2.el9.x86_64 openblas-openmp-0.3.21-2.el9.x86_64 opus-1.3.1-10.el9.x86_64 orc-0.4.31-6.el9.x86_64 pango-1.48.7-3.el9.x86_64 pciutils-libs-3.7.0-5.el9.x86_64 pcre-cpp-8.44-3.el9.3.x86_64 pcre-devel-8.44-3.el9.3.x86_64 pcre-utf16-8.44-3.el9.3.x86_64 pcre-utf32-8.44-3.el9.3.x86_64 pcre2-devel-10.40-2.el9.x86_64 pcre2-utf16-10.40-2.el9.x86_64 pcre2-utf32-10.40-2.el9.x86_64 perl-English-1.11-480.el9.noarch perl-File-Find-1.37-480.el9.noarch pixman-0.40.0-5.el9.x86_64 policycoreutils-3.5-1.el9.x86_64 policycoreutils-python-utils-3.5-1.el9.noarch procps-ng-3.3.17-11.el9.x86_64 pulseaudio-libs-15.0-2.el9.x86_64 pyproject-rpm-macros-1.6.2-1.el9.noarch pyside2-tools-1:5.15.7-1.el9.x86_64 python-qt5-rpm-macros-5.15.6-1.el9.noarch python-rpm-macros-3.9-52.el9.noarch python3-3.9.16-1.el9.x86_64 python3-audit-3.0.7-103.el9.x86_64 python3-dbus-1.2.18-2.el9.x86_64 python3-devel-3.9.16-1.el9.x86_64 python3-distro-1.5.0-7.el9.noarch python3-libs-3.9.16-1.el9.x86_64 python3-libselinux-3.5-1.el9.x86_64 python3-libsemanage-3.5-1.el9.x86_64 python3-mmtf-1.1.2-19.el9.noarch python3-msgpack-1.0.3-2.el9.x86_64 python3-numpy-1:1.20.1-5.el9.x86_64 python3-packaging-20.9-5.el9.noarch python3-pip-wheel-21.2.3-6.el9.noarch python3-policycoreutils-3.5-1.el9.noarch python3-pyparsing-2.4.7-9.el9.noarch python3-pyqt5-sip-12.9.1-1.el9.x86_64 python3-pyside2-1:5.15.7-1.el9.x86_64 python3-pyside2-devel-1:5.15.7-1.el9.x86_64 python3-qt5-5.15.6-1.el9.x86_64 python3-qt5-base-5.15.6-1.el9.x86_64 python3-qt5-devel-5.15.6-1.el9.x86_64 python3-rpm-generators-12-8.el9.noarch python3-rpm-macros-3.9-52.el9.noarch python3-setools-4.4.1-1.el9.x86_64 python3-setuptools-53.0.0-12.el9.noarch python3-setuptools-wheel-53.0.0-12.el9.noarch python3-shiboken2-1:5.15.7-1.el9.x86_64 python3-shiboken2-devel-1:5.15.7-1.el9.x86_64 python3-simplejson-3.17.6-1.el9.x86_64 qt5-qt3d-5.15.3-1.el9.x86_64 qt5-qtbase-5.15.3-1.el9.x86_64 qt5-qtbase-common-5.15.3-1.el9.noarch qt5-qtbase-devel-5.15.3-1.el9.x86_64 qt5-qtbase-gui-5.15.3-1.el9.x86_64 qt5-qtcharts-5.15.3-1.el9.x86_64 qt5-qtconnectivity-5.15.3-1.el9.x86_64 qt5-qtdatavis3d-5.15.3-1.el9.x86_64 qt5-qtdeclarative-5.15.3-1.el9.x86_64 qt5-qtgraphicaleffects-5.15.3-1.el9.x86_64 qt5-qtimageformats-5.15.3-1.el9.x86_64 qt5-qtlocation-5.15.3-1.el9.x86_64 qt5-qtmultimedia-5.15.3-1.el9.x86_64 qt5-qtquickcontrols2-5.15.3-1.el9.x86_64 qt5-qtremoteobjects-5.15.3-1.el9.x86_64 qt5-qtscript-5.15.3-1.el9.x86_64 qt5-qtscxml-5.15.3-1.el9.x86_64 qt5-qtsensors-5.15.3-1.el9.x86_64 qt5-qtserialport-5.15.3-1.el9.x86_64 qt5-qtspeech-5.15.3-1.el9.x86_64 qt5-qtsvg-5.15.3-1.el9.x86_64 qt5-qttools-common-5.15.3-4.el9.noarch qt5-qttools-libs-designer-5.15.3-4.el9.x86_64 qt5-qttools-libs-help-5.15.3-4.el9.x86_64 qt5-qtwebchannel-5.15.3-1.el9.x86_64 qt5-qtwebengine-5.15.8-5.el9.x86_64 qt5-qtwebsockets-5.15.3-1.el9.x86_64 qt5-qtx11extras-5.15.3-1.el9.x86_64 qt5-qtxmlpatterns-5.15.3-1.el9.x86_64 qt5-rpm-macros-5.15.3-1.el9.noarch scl-utils-1:2.0.3-4.el9.x86_64 shared-mime-info-2.1-5.el9.x86_64 shiboken2-1:5.15.7-1.el9.x86_64 snappy-1.1.8-8.el9.x86_64 soundtouch-2.1.1-8.el9.x86_64 sysprof-capture-devel-3.40.1-3.el9.x86_64 tcl-1:8.6.10-7.el9.x86_64 valgrind-1:3.19.0-3.el9.x86_64 valgrind-devel-1:3.19.0-3.el9.x86_64 vim-filesystem-2:8.2.2637-20.el9_1.noarch vulkan-headers-1.3.239.0-2.el9.noarch vulkan-loader-1.3.239.0-1.el9.x86_64 vulkan-loader-devel-1.3.239.0-1.el9.x86_64 webrtc-audio-processing-0.3.1-8.el9.x86_64 xcb-util-0.4.0-19.el9.x86_64 xcb-util-image-0.4.0-19.el9.x86_64 xcb-util-keysyms-0.4.0-17.el9.x86_64 xcb-util-renderutil-0.3.9-20.el9.x86_64 xcb-util-wm-0.4.1-22.el9.x86_64 xkeyboard-config-2.33-2.el9.noarch xml-common-0.6.3-58.el9.noarch xorg-x11-proto-devel-2021.4-2.el9.noarch xz-devel-5.2.5-8.el9_0.x86_64 zlib-devel-1.2.11-39.el9.x86_64 Complete! Finish: build setup for pymol-2.5.0-3.1.TMM.el9.src.rpm Start: rpmbuild pymol-2.5.0-3.1.TMM.el9.src.rpm warning: Macro expanded in comment on line 62: %{?_isa} Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1644451200 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.Auiu2o + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf pymol-open-source-2.5.0 + /usr/bin/gzip -dc /builddir/build/SOURCES/pymol-open-source-2.5.0.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + cd pymol-open-source-2.5.0 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + /usr/bin/cat /builddir/build/SOURCES/pymol-setup.py.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch + /usr/bin/cat /builddir/build/SOURCES/pymol-wmclass-main.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch + /usr/bin/cat /builddir/build/SOURCES/pymol-wmclass-pmgapp.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch + /usr/bin/cat /builddir/build/SOURCES/pymol-mmtf.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch + /usr/bin/cat /builddir/build/SOURCES/pymol-2.5.0-bug186.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch + ln -sr modules/web modules/pymol_web + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.uixHqO + umask 022 + cd /builddir/build/BUILD + cd pymol-open-source-2.5.0 + export 'CXXFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' ++ /usr/bin/getconf _NPROCESSORS_ONLN + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 ' + /usr/bin/python3 setup.py build '--executable=/usr/bin/python3 -s' --use-msgpackc=c++11 --use-openmp=yes --jobs 2 running build running build_py creating build/lib.linux-x86_64-3.9 creating build/lib.linux-x86_64-3.9/pymol2 copying modules/pymol2/cmd2.py -> build/lib.linux-x86_64-3.9/pymol2 copying modules/pymol2/__init__.py -> build/lib.linux-x86_64-3.9/pymol2 creating build/lib.linux-x86_64-3.9/pymol copying modules/pymol/xwin.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/xray.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/wizarding.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/viewing.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/vfont.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/util.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/shortcut_manager.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/shortcut_dict.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/shortcut.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/setting.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/seqalign.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/selector.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/selecting.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/save_shortcut.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/rpc.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/querying.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/pymolhttpd.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/preset.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/povray.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/parsing.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/parser.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/mpeg_encode.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/moving.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/movie.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/morphing.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/monitoring.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/menu.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/locking.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/lazyio.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/keywords.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/keyboard.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/invocation.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/internal.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/importing.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/helping.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/headering.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/gui.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/fitting.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/feedingback.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/externing.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/exporting.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/experimenting.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/editor.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/editing.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/diagnosing.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/creating.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/controlling.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/constants_palette.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/constants.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/computing.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/completing.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/commanding.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/colorramping.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/colorprinting.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/cmd.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/checking.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/cgo.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/callback.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/api.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/_gui.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/__main__.py -> build/lib.linux-x86_64-3.9/pymol copying modules/pymol/__init__.py -> build/lib.linux-x86_64-3.9/pymol creating build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/toggle.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/stereodemo.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/security.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/sculpting.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/renaming.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/pseudoatom.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/pair_fit.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/openvr.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/nucmutagenesis.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/mutagenesis.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/message.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/measurement.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/label.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/filter.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/dragging.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/distance.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/density.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/demo.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/command.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/cleanup.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/charge.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/box.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/benchmark.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/appearance.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/annotation.py -> build/lib.linux-x86_64-3.9/pymol/wizard copying modules/pymol/wizard/__init__.py -> build/lib.linux-x86_64-3.9/pymol/wizard creating build/lib.linux-x86_64-3.9/pymol/stereochemistry copying modules/pymol/stereochemistry/__init__.py -> build/lib.linux-x86_64-3.9/pymol/stereochemistry creating build/lib.linux-x86_64-3.9/pymol/plugins copying modules/pymol/plugins/repository.py -> build/lib.linux-x86_64-3.9/pymol/plugins copying modules/pymol/plugins/managergui_qt.py -> build/lib.linux-x86_64-3.9/pymol/plugins copying modules/pymol/plugins/managergui.py -> build/lib.linux-x86_64-3.9/pymol/plugins copying modules/pymol/plugins/legacysupport.py -> build/lib.linux-x86_64-3.9/pymol/plugins copying modules/pymol/plugins/installation.py -> build/lib.linux-x86_64-3.9/pymol/plugins copying modules/pymol/plugins/__init__.py -> build/lib.linux-x86_64-3.9/pymol/plugins creating build/lib.linux-x86_64-3.9/pymol/Qt copying modules/pymol/Qt/utils.py -> build/lib.linux-x86_64-3.9/pymol/Qt copying modules/pymol/Qt/__init__.py -> build/lib.linux-x86_64-3.9/pymol/Qt creating build/lib.linux-x86_64-3.9/pmg_tk copying modules/pmg_tk/PMGApp.py -> build/lib.linux-x86_64-3.9/pmg_tk copying modules/pmg_tk/volume.py -> build/lib.linux-x86_64-3.9/pmg_tk copying modules/pmg_tk/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk copying modules/pmg_tk/TextEditor.py -> build/lib.linux-x86_64-3.9/pmg_tk copying modules/pmg_tk/Setting.py -> build/lib.linux-x86_64-3.9/pmg_tk copying modules/pmg_tk/SetEditor.py -> build/lib.linux-x86_64-3.9/pmg_tk copying modules/pmg_tk/PyMOLMapLoad.py -> build/lib.linux-x86_64-3.9/pmg_tk copying modules/pmg_tk/Demo.py -> build/lib.linux-x86_64-3.9/pmg_tk copying modules/pmg_tk/ColorEditor.py -> build/lib.linux-x86_64-3.9/pmg_tk creating build/lib.linux-x86_64-3.9/pmg_tk/startup copying modules/pmg_tk/startup/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk/startup creating build/lib.linux-x86_64-3.9/pmg_tk/skins copying modules/pmg_tk/skins/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins creating build/lib.linux-x86_64-3.9/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/builder.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/ModalWindow.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins/normal creating build/lib.linux-x86_64-3.9/pmg_tk/skins/demo copying modules/pmg_tk/skins/demo/__init__.py -> build/lib.linux-x86_64-3.9/pmg_tk/skins/demo creating build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/volume.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/shortcut_menu_gui.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/pymol_qt_gui.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/pymol_gl_widget.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/properties_dialog.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/mimic_tk.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/mimic_pmg_tk.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/keymapping.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/file_dialogs.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/builder.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/advanced_settings_gui.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/__init__.py -> build/lib.linux-x86_64-3.9/pmg_qt copying modules/pmg_qt/TextEditor.py -> build/lib.linux-x86_64-3.9/pmg_qt creating build/lib.linux-x86_64-3.9/pmg_qt/syntax copying modules/pmg_qt/syntax/python.py -> build/lib.linux-x86_64-3.9/pmg_qt/syntax copying modules/pmg_qt/syntax/pmlparser.py -> build/lib.linux-x86_64-3.9/pmg_qt/syntax copying modules/pmg_qt/syntax/pml.py -> build/lib.linux-x86_64-3.9/pmg_qt/syntax copying modules/pmg_qt/syntax/__init__.py -> build/lib.linux-x86_64-3.9/pmg_qt/syntax creating build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/__init__.py -> build/lib.linux-x86_64-3.9/pmg_qt/forms creating build/lib.linux-x86_64-3.9/chempy copying modules/chempy/xyz.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/water_residues.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/water_amber.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/solvate.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/sdf.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/protein_residues.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/protein_mmff.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/protein_amber99.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/protein_amber.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/protein.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/place.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/pkl.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/pdb.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/neighbor.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/mol2.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/mol.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/models.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/mmd.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/mass.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/map.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/mae.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/lst.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/io.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/hetatm.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/gms.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/gamess1.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/dictdb.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/cpv.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/cif.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/charge.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/cc1.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/brick.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/bonds.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/bond_mmff.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/bond_amber.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/arc.py -> build/lib.linux-x86_64-3.9/chempy copying modules/chempy/__init__.py -> build/lib.linux-x86_64-3.9/chempy creating build/lib.linux-x86_64-3.9/chempy/tinker copying modules/chempy/tinker/state.py -> build/lib.linux-x86_64-3.9/chempy/tinker copying modules/chempy/tinker/realtime.py -> build/lib.linux-x86_64-3.9/chempy/tinker copying modules/chempy/tinker/keyword.py -> build/lib.linux-x86_64-3.9/chempy/tinker copying modules/chempy/tinker/amber.py -> build/lib.linux-x86_64-3.9/chempy/tinker copying modules/chempy/tinker/__init__.py -> build/lib.linux-x86_64-3.9/chempy/tinker creating build/lib.linux-x86_64-3.9/chempy/mmtf copying modules/chempy/mmtf/io.py -> build/lib.linux-x86_64-3.9/chempy/mmtf copying modules/chempy/mmtf/__init__.py -> build/lib.linux-x86_64-3.9/chempy/mmtf creating build/lib.linux-x86_64-3.9/chempy/fragments copying modules/chempy/fragments/__init__.py -> build/lib.linux-x86_64-3.9/chempy/fragments creating build/lib.linux-x86_64-3.9/chempy/fast copying modules/chempy/fast/__init__.py -> build/lib.linux-x86_64-3.9/chempy/fast creating build/lib.linux-x86_64-3.9/chempy/champ copying modules/chempy/champ/formal_charges.py -> build/lib.linux-x86_64-3.9/chempy/champ copying modules/chempy/champ/assign.py -> build/lib.linux-x86_64-3.9/chempy/champ copying modules/chempy/champ/amber99.py -> build/lib.linux-x86_64-3.9/chempy/champ copying modules/chempy/champ/__init__.py -> build/lib.linux-x86_64-3.9/chempy/champ creating build/lib.linux-x86_64-3.9/chempy/bmin copying modules/chempy/bmin/util.py -> build/lib.linux-x86_64-3.9/chempy/bmin copying modules/chempy/bmin/state.py -> build/lib.linux-x86_64-3.9/chempy/bmin copying modules/chempy/bmin/realtime.py -> build/lib.linux-x86_64-3.9/chempy/bmin copying modules/chempy/bmin/commands.py -> build/lib.linux-x86_64-3.9/chempy/bmin copying modules/chempy/bmin/__init__.py -> build/lib.linux-x86_64-3.9/chempy/bmin copying modules/pmg_qt/forms/shortcut_menu.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/save_object.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/save_molecule.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/render.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/props.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/png.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/pluginmanager.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/pluginitem.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/movieexport.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/load_traj.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/load_mtz.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/load_map.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/load_mae.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/load_aln.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/help_shortcut.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/fetch.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/create_shortcut.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/colors.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/change_confirm.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms copying modules/pmg_qt/forms/askpartial.ui -> build/lib.linux-x86_64-3.9/pmg_qt/forms running build_ext building 'pymol._cmd' extension creating build/temp.linux-x86_64-3.9 creating build/temp.linux-x86_64-3.9/build creating build/temp.linux-x86_64-3.9/build/generated creating build/temp.linux-x86_64-3.9/contrib creating build/temp.linux-x86_64-3.9/contrib/mmtf-c creating build/temp.linux-x86_64-3.9/contrib/uiuc creating build/temp.linux-x86_64-3.9/contrib/uiuc/plugins creating build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin creating build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src creating build/temp.linux-x86_64-3.9/layer0 creating build/temp.linux-x86_64-3.9/layer1 creating build/temp.linux-x86_64-3.9/layer2 creating build/temp.linux-x86_64-3.9/layer3 creating build/temp.linux-x86_64-3.9/layer4 creating build/temp.linux-x86_64-3.9/layer5 creating build/temp.linux-x86_64-3.9/ov creating build/temp.linux-x86_64-3.9/ov/src g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD build/generated/ShaderText.cpp -o build/temp.linux-x86_64-3.9/build/generated/ShaderText.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/mmtf-c/mmtf_parser.cpp -o build/temp.linux-x86_64-3.9/contrib/mmtf-c/mmtf_parser.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:79: contrib/uiuc/plugins/molfile_plugin/src/fastio.h: In function ‘fio_readv’: contrib/uiuc/plugins/molfile_plugin/src/fastio.h:519:14: warning: comparison of integer expressions of different signedness: ‘fio_size_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 519 | if (rc != iov[i].iov_len) | ^~ In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:89: At top level: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘swap8_unaligned’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘swap4_unaligned’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:79: contrib/uiuc/plugins/molfile_plugin/src/fastio.h:459:19: warning: ‘fio_readv’ defined but not used [-Wunused-function] 459 | static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) { | ^~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/mmtf-c/mmtf_parser.cpp: In function ‘bool MMTF_unpack_from_file(const char*, MMTF_container*)’: contrib/mmtf-c/mmtf_parser.cpp:1075:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1075 | fread(buffer, fileLen, 1, file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp: In function ‘int {anonymous}::write_structure(void*, int, const molfile_atom_t*)’: contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1904:9: warning: unused variable ‘last_ctnumber’ [-Wunused-variable] 1904 | int last_ctnumber = -1; | ^~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function ‘PlugIOManagerInitAll’: contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:271:1: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 271 | if(ok) ok = ok && (molfile_xyzplugin_init() == VMDPLUGIN_SUCCESS); | ^~ contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:273:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 273 | if(ok) { | ^~ contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function ‘PlugIOManagerFreeAll’: contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:411:1: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 411 | if(ok) ok = ok && (molfile_xyzplugin_fini() == VMDPLUGIN_SUCCESS); | ^~ contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:413:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 413 | return ok; | ^~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function ‘abinit_readline’: contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:279:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 279 | for (i = 0; i < strlen(line); ++i) { | ^ In file included from contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:70: At top level: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function] 160 | static int get_pte_idx_from_string(const char *label) { | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:56: In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::SitesArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:938:9: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::SitesArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:938:9: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 32 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::PseudoArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1046:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::PseudoArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1046:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::PseudoArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1047:23: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::PseudoArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1047:23: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::PseudoArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1048:23: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::PseudoArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1048:23: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:861:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:861:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:862:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:862:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:863:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:863:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:865:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:865:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:866:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:866:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:784:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:867:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:786:16, inlined from ‘(anonymous namespace)::Array::get_str(std::__cxx11::basic_string, std::allocator > const&, char*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:781:17, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:867:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 2 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘(anonymous namespace)::AtomArray::insert_row(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:886:16: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:42: contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘angular_momentum_expon’: contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:545:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 545 | for (i=0; ifile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:252:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 252 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_bonds_aux(void*, int*, int**, int**, float**)’: contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:328:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 328 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:346:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 346 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:355:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 355 | fgets(nextline, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:419:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 419 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘int read_bgf_structure(void*, int*, molfile_atom_t*)’: contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:194:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 194 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:203:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 203 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function ‘void* open_bgf_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:59:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 59 | fgets(line, LINESIZE, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:27: In function ‘strncpy’, inlined from ‘get_bgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:120:12, inlined from ‘read_bgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:261:24: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 224 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_bgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:125:12, inlined from ‘read_bgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:261:24: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 214 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_bgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:130:12, inlined from ‘read_bgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:261:24: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 204 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_bgf_fields(char const*, char*, char*, char*, char*, int*, char*, float*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:144:10, inlined from ‘read_bgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:215:19: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 242 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_bgf_fields(char const*, char*, char*, char*, char*, int*, char*, float*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:149:10, inlined from ‘read_bgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:215:19: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 236 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_bgf_fields(char const*, char*, char*, char*, char*, int*, char*, float*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:167:10, inlined from ‘read_bgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:215:19: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 194 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function ‘int read_brix_data(void*, int, float*, float*)’: contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:247:14: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 247 | fread(brick, sizeof(char), 512, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function ‘void* open_brix_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:79:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 79 | fscanf(fd, "%3s", keyWord); | ~~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:86:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 86 | fscanf(fd, " %s %d %d %d", keyWord, &org_x, &org_y, &org_z); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:93:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 93 | fscanf(fd, " %s %d %d %d", keyWord, &ext_x, &ext_y, &ext_z); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:100:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 100 | fscanf(fd, " %s %f %f %f", keyWord, &grid_x, &grid_y, &grid_z); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:109:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 109 | fscanf(fd, " %s %f %f %f %f %f %f", keyWord, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 110 | &cell_x, &cell_y, &cell_z, &cell_alpha, &cell_beta, &cell_gamma); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:123:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 123 | fscanf(fd, " %s %f", keyWord, &prod); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:128:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 128 | fscanf(fd, " %s %f", keyWord, &plus); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:135:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 135 | fscanf(fd, " %s %f", keyWord, &sigma); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In function ‘strncpy’, inlined from ‘(anonymous namespace)::read_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1786:22: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function ‘read_car_structure’: contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:29: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 8 [-Wformat-overflow=] 127 | sprintf(atom->resname, "%d", resid); | ^~ contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:28: note: directive argument in the range [-2147483648, 9999999] 127 | sprintf(atom->resname, "%d", resid); | ^~~~ In file included from /usr/include/stdio.h:900, from contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:85: /usr/include/bits/stdio2.h:30:10: note: ‘__sprintf_chk’ output between 2 and 12 bytes into a destination of size 8 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘int read_ccp4_data(void*, int, float*, float*)’: contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:495:58: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 495 | if ( fread(rowdata, sizeof(char), extent[0], fd) != extent[0] ) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:525:67: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 525 | if ( fread(rowdata, sizeof(unsigned char), extent[0], fd) != extent[0] ) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:556:58: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | if (fread(rowdata, sizeof(float), extent[0], fd) != extent[0] ) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:588:58: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 588 | if (fread(rowdata, sizeof(short), extent[0], fd) != extent[0] ) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:623:67: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 623 | if (fread(rowdata, sizeof(unsigned short), extent[0], fd) != extent[0] ) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:655:60: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 655 | if ( fread(rowdata, sizeof(uchar3), extent[0], fd) != extent[0] ) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘void* open_ccp4_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:304:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 304 | fgets(symData, 81, fd); | ~~~~~^~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:42: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function ‘open_ccp4_read(char const*, char const*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:287:42: warning: ‘dataOffset’ may be used uninitialized in this function [-Wmaybe-uninitialized] 287 | } else if ((dataOffset > CCP4HDSIZE) && (dataOffset < (1024*1024))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function ‘void* open_cube_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:175:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 175 | fgets(readbuf, 1023, cube->fd); // go on to next line | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:181:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 181 | fgets(readbuf, 1023, cube->fd); // skip second header line | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:326:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 326 | fgets(readbuf, 1023, cube->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:337:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 337 | fgets(readbuf, 1023, cube->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:339:11: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 339 | fscanf(cube->fd, "%d", &cube->nsets); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:344:13: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 344 | fscanf(cube->fd, "%d", &orb); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:349:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 349 | fgets(readbuf, 1023, cube->fd); // gobble up rest of line | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: At global scope: contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:107:13: warning: ‘void cube_buildrotmat(cube_t*, float*, float*, float*)’ defined but not used [-Wunused-function] 107 | static void cube_buildrotmat(cube_t *cube, float *o, float *a, float *b) | ^~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:42: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘int get_pte_idx_from_string(const char*)’ defined but not used [-Wunused-function] 160 | static int get_pte_idx_from_string(const char *label) { | ^~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘int get_pte_idx(const char*)’ defined but not used [-Wunused-function] 133 | static int get_pte_idx(const char *label) | ^~~~~~~~~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:33: In function ‘strncat’, inlined from ‘open_cube_read(char const*, char const*, int*)’ at contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:179:10: /usr/include/bits/string_fortified.h:138:34: warning: ‘__strncat_chk’ output may be truncated copying 240 bytes from a string of length 1023 [-Wstringop-truncation] 138 | return __builtin___strncat_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 139 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:51: contrib/uiuc/plugins/molfile_plugin/src/fastio.h: In function ‘fio_readv’: contrib/uiuc/plugins/molfile_plugin/src/fastio.h:519:14: warning: comparison of integer expressions of different signedness: ‘fio_size_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 519 | if (rc != iov[i].iov_len) | ^~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function ‘read_dcdheader’: contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:191:57: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 191 | } else if (input_integer[0] == 84 && input_integer[1] == dcdcordmagic) { | ^~ contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:204:54: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 204 | if (input_integer[0] == 84 && input_integer[1] == dcdcordmagic) { | ^~ contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:222:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 222 | if (input_integer[0] != dcdcordmagic) { | ^~ contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:399:45: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 399 | if ((input_integer[0]+input_integer[1]) != ((*N)-(*NAMNF))*4) { | ^~ contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:416:45: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 416 | if ((input_integer[0]+input_integer[1]) != ((*N)-(*NAMNF))*4) { | ^~ contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function ‘read_dcdstep’: contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:621:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 621 | if (tmpbuf[i] != sizeof(float)*N) return DCD_BADFORMAT; | ^~ contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:625:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 625 | if ((tmpbuf[2*i]+tmpbuf[2*i+1]) != sizeof(float)*N) return DCD_BADFORMAT; | ^~ contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:546:16: warning: variable ‘readlen’ set but not used [-Wunused-but-set-variable] 546 | fio_size_t readlen; /* number of bytes actually read */ | ^~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:60: At top level: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:51: contrib/uiuc/plugins/molfile_plugin/src/fastio.h:609:12: warning: ‘fio_write_str’ defined but not used [-Wunused-function] 609 | static int fio_write_str(fio_fd fd, const char *str) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/fastio.h:605:12: warning: ‘fio_read_int32’ defined but not used [-Wunused-function] 605 | static int fio_read_int32(fio_fd fd, int *i) { | ^~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/fastio.h:459:19: warning: ‘fio_readv’ defined but not used [-Wunused-function] 459 | static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) { | ^~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘int read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)’: contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:278:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 278 | fgets(line, LINESIZE, mdf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:297:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 297 | fgets(line, LINESIZE, mdf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:319:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 319 | fgets(line, LINESIZE, mdf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:357:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 357 | fgets(line, LINESIZE, mdf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘int read_mdf_structure(void*, int*, molfile_atom_t*)’: contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:223:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 223 | fgets(line, LINESIZE, mdf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:241:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 241 | fgets(line, LINESIZE, mdf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function ‘void* open_mdf_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:164:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 164 | fgets(line, LINESIZE, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:176:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 176 | fgets(line, LINESIZE, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:183:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 183 | fgets(line, LINESIZE, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2_timestep(void*, int, molfile_timestep_t*)’: contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:275:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 275 | fgets(line, LINESIZE, mol2->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:289:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 289 | fgets(line, LINESIZE, mol2->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2_bonds_aux(void*, int*, int**, int**, float**)’: contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:199:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 199 | fgets(line, LINESIZE, mol2->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:209:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 209 | fgets(line, LINESIZE, mol2->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘int read_mol2(void*, int*, molfile_atom_t*)’: contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:127:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 127 | fgets(line, LINESIZE, mol2->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:138:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 138 | fgets(line, LINESIZE, mol2->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function ‘void* open_mol2_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:74:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 74 | fgets(line, LINESIZE, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:81:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 81 | fgets(line, LINESIZE, fd); // Read and ignore the mol_name | ~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:82:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 82 | fgets(line, LINESIZE, fd); // Read the molecule info | ~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:91:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 91 | fgets(line, LINESIZE, fd); // Read and ignore the mol_type | ~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:92:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 92 | fgets(line, LINESIZE, fd); // Read the charge_type | ~~~~~^~~~~~~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function ‘read_dlpoly_config_structure’: contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:292:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 292 | if (NULL == fgets(fbuffer, 1024, data->file)) | ^~ contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:295:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 295 | if (NULL == fgets(fbuffer, 1024, data->file)) | ^~ In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49: contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘angular_momentum_expon’: contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:545:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 545 | for (i=0; ifd) != 3*n) { | ^~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c: In function ‘read_mmtk_cdf_structure’: contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c:730:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 730 | if (len > sizeof(name)) { | ^ contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c: In function ‘read_mmtk_cdf_timestep’: contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.c:1060:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1060 | for (i=0; i<(3 * mmtk->atom_numberdim); i++) { | ^ In file included from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:71: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: ‘void swap4_aligned(void*, long int)’ defined but not used [-Wunused-function] 110 | static void swap4_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:70: contrib/uiuc/plugins/molfile_plugin/src/vmddir.h:145:12: warning: ‘int vmd_file_is_executable(const char*)’ defined but not used [-Wunused-function] 145 | static int vmd_file_is_executable(const char * filename) { | ^~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp: In function ‘int read_parm7_structure(void*, int*, molfile_atom_t*)’: contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:78:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 78 | fgets(buf, 85, file); | ~~~~~^~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:25: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_atoms(const char*, int, molfile_atom_t*, FILE*)’: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:204:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 204 | fgets(buf, 85, file); | ~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_atype(const char*, int, molfile_atom_t*, FILE*)’: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:257:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 257 | fgets(buf, 85, file); | ~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_resnames(const char*, int, char*, FILE*)’: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:275:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 275 | fgets(buf, 85, file); | ~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int parse_parm7_respointers(const char*, int, molfile_atom_t*, int, const char*, FILE*)’: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:289:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 289 | fscanf(file, " %d", &cur); | ~~~~~~^~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘parmstruct* read_parm7_header(FILE*)’: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:368:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 368 | fgets(sdum, 512, file); | ~~~~~^~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:371:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 371 | fscanf(file, "%s\n", sdum); // "%FLAG" | ~~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:378:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 378 | fscanf(file, "%s\n", sdum); // "TITLE" or "CTITLE" | ~~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:385:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 385 | fscanf(file, "%s\n", sdum); // "FORMAT (20a4)" | ~~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:399:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 399 | fgets(prm->title, sizeof(prm->title), file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:427:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 427 | fgets(sdum, sizeof(sdum), file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:439:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 439 | fscanf(file,parm7, | ~~~~~~^~~~~~~~~~~~ 440 | &prm->Natom, &prm->Ntypes, &prm->Nbonh, &prm->Nbona, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 441 | &prm->Ntheth, &prm->Ntheta, &prm->Nphih, &prm->Nphia, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 442 | &prm->Jparm, &prm->Nparm); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:443:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 443 | fscanf(file, parm7, | ~~~~~~^~~~~~~~~~~~~ 444 | &prm->Nnb, &prm->Nres, &prm->Mbona, &prm->Mtheta, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 445 | &prm->Mphia, &prm->Numbnd, &prm->Numang, &prm->Mptra, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 | &prm->Natyp, &prm->Nphb); | ~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:447:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 447 | fscanf(file, parm7, &prm->Ifpert, &prm->Nbper, &prm->Ngper, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 448 | &prm->Ndper, &prm->Mbper, &prm->Mgper, &prm->Mdper, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 449 | &prm->IfBox, &prm->Nmxrs, &prm->IfCap); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:451:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 451 | fscanf(file,"%8d",&prm->Numextra); //BB | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function ‘int read_parm7_flag(FILE*, const char*, const char*)’: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:79:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 79 | fscanf(file, "%s\n", buf); | ~~~~~~^~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:87:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 87 | fscanf(file, "%s\n", buf); | ~~~~~~^~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:97:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 97 | fscanf(file, "%s\n", buf); | ~~~~~~^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:23: In function ‘strncpy’, inlined from ‘parse_parm7_resnames(char const*, int, char*, _IO_FILE*)’ at contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:277:12, inlined from ‘read_parm7_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:93:32: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘parse_parm7_atype(char const*, int, molfile_atom_t*, _IO_FILE*)’ at contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:259:12, inlined from ‘read_parm7_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:90:29: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘parse_parm7_atoms(char const*, int, molfile_atom_t*, _IO_FILE*)’ at contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:206:12, inlined from ‘read_parm7_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:82:29: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:24: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h: In member function ‘int {anonymous}::ReadPARM::readparm(FILE*)’: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:435:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 435 | fscanf(file, " " DBLFMT, &prm->Charges[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:444:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 444 | fscanf(file, " " DBLFMT, &prm->Masses[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:510:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 510 | fscanf(file, " " DBLFMT, &prm->Rk[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:517:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 517 | fscanf(file, " " DBLFMT, &prm->Req[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:524:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 524 | fscanf(file, " " DBLFMT, &prm->Tk[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:531:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 531 | fscanf(file, " " DBLFMT, &prm->Teq[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:538:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 538 | fscanf(file, " " DBLFMT, &prm->Pk[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:545:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 545 | fscanf(file, " " DBLFMT, &prm->Pn[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:552:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 552 | fscanf(file, " " DBLFMT, &prm->Phase[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:559:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 559 | fscanf(file, " " DBLFMT, &prm->Solty[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:567:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 567 | fscanf(file, " " DBLFMT, &prm->Cn1[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:575:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 575 | fscanf(file, " " DBLFMT, &prm->Cn2[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:756:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 756 | fscanf(file, " " DBLFMT, &prm->HB12[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:763:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 763 | fscanf(file, " " DBLFMT, &prm->HB6[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:771:17: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 771 | fscanf(file, " " DBLFMT, &H[i]); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:853:23: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 853 | fscanf(file, " " DBLFMT " " DBLFMT " " DBLFMT, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 854 | &prm->Box[0], &prm->Box[1], &prm->Box[2]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:867:23: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 867 | fscanf(file, " %d " DBLFMT " " DBLFMT " " DBLFMT " " DBLFMT, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 868 | &prm->Natcap, &prm->Cutcap, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 869 | &prm->Xcap, &prm->Ycap, &prm->Zcap); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:53: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:32: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘get_pte_idx’ defined but not used [-Wunused-function] 133 | static int get_pte_idx(const char *label) | ^~~~~~~~~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:23, from contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:31: In function ‘strncpy’, inlined from ‘get_pdb_cryst1’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:119:3, inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:277:9: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 82 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:144:5, inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 52 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:149:5, inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 44 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:154:5, inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 8 bytes from a string of length 36 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:159:5, inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 28 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:164:5, inlined from ‘read_next_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:270:9: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 22 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_header’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:190:5, inlined from ‘open_pdb_read’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:79:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 9 bytes from a string of length 32 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_header’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:200:5, inlined from ‘open_pdb_read’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:79:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 20 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:299:3, inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 70 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:304:3, inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 1 byte from a string of length 66 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:308:3, inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 65 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:317:3, inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 60 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:159:5, inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:326:3, inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 28 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_coordinates’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:164:5, inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:326:3, inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 6 bytes from a string of length 22 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:330:5, inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 10 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pdb_fields’ at contrib/uiuc/plugins/molfile_plugin/src/readpdb.h:339:5, inlined from ‘read_pdb_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:151:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 2 bytes from a string of length 6 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘int getUniqueResID(char*, int)’: contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:443:7: warning: unused variable ‘i’ [-Wunused-variable] 443 | int i, uid; | ^ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘int parseStructureFaster(molfile_atom_t*, int*, pdbxParser*)’: contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:484:47: warning: unused variable ‘j’ [-Wunused-variable] 484 | int i, count, atomdata, pos, idx, xyzcount, j; | ^ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:503:8: warning: unused variable ‘oldChain’ [-Wunused-variable] 503 | char oldChain[8]; | ^~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘bool readAngleBonds(molfile_atom_t*, pdbxParser*)’: contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:803:7: warning: unused variable ‘bondTable’ [-Wunused-variable] 803 | int bondTable[32]; | ^~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:807:15: warning: unused variable ‘j’ [-Wunused-variable] 807 | int i, pos, j, k; | ^ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:811:8: warning: unused variable ‘modelNum’ [-Wunused-variable] 811 | char modelNum[8]; | ^~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:822:20: warning: unused variable ‘atom’ [-Wunused-variable] 822 | molfile_atom_t * atom; | ^~~~ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:884:7: warning: unused variable ‘test’ [-Wunused-variable] 884 | int test = parser->nbonds + bnum; | ^~~~ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘bool readRMSDBonds(molfile_atom_t*, pdbxParser*)’: contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:984:7: warning: unused variable ‘bondTable’ [-Wunused-variable] 984 | int bondTable[32]; | ^~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:988:15: warning: unused variable ‘j’ [-Wunused-variable] 988 | int i, pos, j, k; | ^ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:991:8: warning: unused variable ‘modelNum’ [-Wunused-variable] 991 | char modelNum[8]; | ^~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1002:20: warning: unused variable ‘atom’ [-Wunused-variable] 1002 | molfile_atom_t * atom; | ^~~~ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: In function ‘void* open_file_write(const char*, const char*, int)’: contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:1409:9: warning: unused variable ‘fd’ [-Wunused-variable] 1409 | FILE* fd; | ^~ contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp: At global scope: contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:313:14: warning: ‘float stringToFloat(char*)’ defined but not used [-Wunused-function] 313 | static float stringToFloat(char * str) { | ^~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp:25: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: ‘int get_pte_idx(const char*)’ defined but not used [-Wunused-function] 133 | static int get_pte_idx(const char *label) | ^~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: ‘const char* get_pte_label(int)’ defined but not used [-Wunused-function] 95 | static const char *get_pte_label(const int idx) | ^~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp:38: In function ‘strncpy’, inlined from ‘read_phi_data(void*, int, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp:216:14: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 84 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function ‘int read_plt_data(void*, int, float*, float*)’: contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:143:51: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 143 | if ( fread(datablock, sizeof(float), ndata, fd) != ndata ) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function ‘void* open_plt_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:69:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 69 | fread(intHeader, sizeof(int), 5, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:82:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 82 | fread(floatHeader, sizeof(float), 6, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:42: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void put_element_ply(PlyFile*, void*)’: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:459:7: warning: unused variable ‘i’ [-Wunused-variable] 459 | int i,j,k; | ^ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void ascii_get_element(PlyFile*, char*)’: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1407:7: warning: unused variable ‘i’ [-Wunused-variable] 1407 | int i,j,k; | ^ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void binary_get_element(PlyFile*, char*)’: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1541:7: warning: unused variable ‘i’ [-Wunused-variable] 1541 | int i,j,k; | ^ contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’: contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:107:17: warning: variable ‘vert_other’ set but not used [-Wunused-but-set-variable] 107 | PlyOtherProp *vert_other=NULL; | ^~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:108:17: warning: variable ‘face_other’ set but not used [-Wunused-but-set-variable] 108 | PlyOtherProp *face_other=NULL; | ^~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void binary_get_element(PlyFile*, char*)’: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1629:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1629 | fread (&len, sizeof(int), 1, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1631:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1631 | fread (str, len, 1, fp); | ~~~~~~^~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘void get_binary_item(FILE*, int, int*, unsigned int*, double*)’: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2057:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2057 | fread (ptr, 1, 1, fp); | ~~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2063:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2063 | fread (ptr, 1, 1, fp); | ~~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2069:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2069 | fread (ptr, 2, 1, fp); | ~~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2075:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2075 | fread (ptr, 2, 1, fp); | ~~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2081:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2081 | fread (ptr, 4, 1, fp); | ~~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2087:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2087 | fread (ptr, 4, 1, fp); | ~~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2093:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2093 | fread (ptr, 4, 1, fp); | ~~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2099:13: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 2099 | fread (ptr, 8, 1, fp); | ~~~~~~^~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:27: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: ‘void swap4_aligned(void*, long int)’ defined but not used [-Wunused-function] 110 | static void swap4_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘DDmkdir(std::__cxx11::basic_string, std::allocator > const&, unsigned int, int, int)’: contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:23: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=] 714 | sprintf(sub, "%03x/", i); | ^~~~ contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:22: note: directive argument in the range [0, 2147483646] 714 | sprintf(sub, "%03x/", i); | ^~~~~~~ In file included from /usr/include/stdio.h:900, from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56, from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47: /usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 5 and 10 bytes into a destination of size 6 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:30: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=] 722 | sprintf(subsub, "%03x", j); | ^~~~ contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:722:29: note: directive argument in the range [0, 2147483646] 722 | sprintf(subsub, "%03x", j); | ^~~~~~ In file included from /usr/include/stdio.h:900, from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56, from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47: /usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 4 and 9 bytes into a destination of size 6 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘recreate_command_line’: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1334:11: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 1334 | line[0] = '\0'; | ~~~~~~~~^~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1333:26: note: destination object of size 0 allocated by ‘malloc’ 1333 | line = (char *) malloc (sizeof(char) * len); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘ascii_get_element(PlyFile*, char*)’: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1497:18: warning: ‘item’ may be used uninitialized in this function [-Wmaybe-uninitialized] 1497 | item += item_size; | ~~~~~^~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1477:19: warning: ‘other_data’ may be used uninitialized in this function [-Wmaybe-uninitialized] 1477 | store_array = (char **) (elem_data + prop->offset); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function ‘framefile(std::__cxx11::basic_string, std::allocator > const&, unsigned long, unsigned long, int, int)’: contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:675:35: warning: ‘__sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 675 | sprintf(answer, "%03x/", d1); | ^ In file included from /usr/include/stdio.h:900, from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56, from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47: /usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 5 and 10 bytes into a destination of size 9 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:35: warning: ‘%03x’ directive writing between 3 and 8 bytes into a region of size between 0 and 5 [-Wformat-overflow=] 673 | sprintf(answer, "%03x/%03x/", d1, d2); | ^~~~ contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:673:29: note: directive argument in the range [0, 2147483646] 673 | sprintf(answer, "%03x/%03x/", d1, d2); | ^~~~~~~~~~~~ In file included from /usr/include/stdio.h:900, from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.hxx:56, from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:47: /usr/include/bits/stdio2.h:30:34: note: ‘__sprintf_chk’ output between 9 and 19 bytes into a destination of size 9 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘binary_get_element(PlyFile*, char*)’: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1620:18: warning: ‘item’ may be used uninitialized in this function [-Wmaybe-uninitialized] 1620 | item += item_size; | ~~~~~^~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1634:14: warning: ‘other_data’ may be used uninitialized in this function [-Wmaybe-uninitialized] 1634 | item = elem_data + prop->offset; | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function ‘get_atom_radius’: contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:16: warning: variable ‘type’ set but not used [-Wunused-but-set-variable] 166 | char *name, *type; | ^~~~ contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:9: warning: variable ‘name’ set but not used [-Wunused-but-set-variable] 166 | char *name, *type; | ^~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:34: In function ‘strncpy’, inlined from ‘get_pqr_cryst1’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:109:3, inlined from ‘read_pqr_timestep’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:319:9: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 81 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pqr_fields’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:137:3, inlined from ‘read_pqr_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:268:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 68 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pqr_fields’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:138:3, inlined from ‘read_pqr_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:268:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 63 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pqr_fields’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:139:3, inlined from ‘read_pqr_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:268:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 1 byte from a string of length 59 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_pqr_fields’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:140:3, inlined from ‘read_pqr_structure’ at contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:268:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 58 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c: In function ‘write_psf_structure’: contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:782:33: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 782 | if (strlen(atoms[i].type) > fw) { | ^ In file included from contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:30: At top level: contrib/uiuc/plugins/molfile_plugin/src/fortread.h:103:12: warning: ‘fortread_4’ defined but not used [-Wunused-function] 103 | static int fortread_4(void *dest, int n, int swap, FILE *fd) { | ^~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: ‘fort_get_endian_reclen’ defined but not used [-Wunused-function] 55 | static int fort_get_endian_reclen(int reclen, int word0, int word1, | ^~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: ‘fort_eat_recmark’ defined but not used [-Wunused-function] 36 | static int fort_eat_recmark(FILE *ifp, int recmarklen) { | ^~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/fortread.h:28, from contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:30: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘swap8_aligned’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘swap8_unaligned’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘swap4_unaligned’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function ‘open_rst_read’: contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:48:11: warning: variable ‘timesteprst’ set but not used [-Wunused-but-set-variable] 48 | double timesteprst; | ^~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function ‘int read_spider_data(void*, int, float*, float*)’: contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:286:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 286 | fread(datablock, total * sizeof(float), 1, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:36: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function ‘int read_edm_data(void*, int, float*, float*)’: contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:240:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 240 | fgets(readbuf, 13, edm->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function ‘void eatline(FILE*)’: contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:44:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 44 | fgets(readbuf, 1024, fd); // go on to next line | ~~~~~^~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’: contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:96:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 96 | fgets(line, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:104:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 104 | fgets(line, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:119:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 119 | fgets(line, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:131:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 131 | fgets(line, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:153:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 153 | fgets(line, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:162:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 162 | fgets(line, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:171:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 171 | fgets(line, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp: In function ‘void* open_fs4_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:79:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 79 | fread(&dataBegin, sizeof(int), 1, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:48: contrib/uiuc/plugins/molfile_plugin/src/fortread.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: ‘void strnwscpy(char*, const char*, int)’ defined but not used [-Wunused-function] 133 | static void strnwscpy(char *target, const char *source, const int len) { | ^~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: ‘int fort_get_endian_reclen(int, int, int, int*, int*)’ defined but not used [-Wunused-function] 55 | static int fort_get_endian_reclen(int reclen, int word0, int word1, | ^~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: ‘int fort_eat_recmark(FILE*, int)’ defined but not used [-Wunused-function] 36 | static int fort_eat_recmark(FILE *ifp, int recmarklen) { | ^~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:47: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c:41: In function ‘strncpy’, inlined from ‘read_tinker_structure’ at contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c:103:5: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘void* open_uhbd_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:22: warning: variable ‘o’ set but not used [-Wunused-but-set-variable] 90 | float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3]; | ^ contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:28: warning: variable ‘s’ set but not used [-Wunused-but-set-variable] 90 | float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3]; | ^ contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘int read_uhbd_data(void*, int, float*, float*)’: contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:254:66: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 254 | if (fread(datablock + z*xysize, sizeof(float), xysize, fd) != xysize) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function ‘void* open_uhbd_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:102:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 102 | fread(&headersize, sizeof(int), 1, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:47: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function ‘angular_momentum_expon’: contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:545:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 545 | for (i=0; itype, sizeof(atom->type)); | ^ In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:40: At top level: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function] 160 | static int get_pte_idx_from_string(const char *label) { | ^~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘symmetry_expand’ at contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:819:5, inlined from ‘get_traj_frame.constprop.0’ at contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2931:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 10 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:40: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function] 160 | static int get_pte_idx_from_string(const char *label) { | ^~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function ‘void line3(FILE*, GRASSP*)’: contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:186:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 186 | fread(line3, 1, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function ‘int read_rawgraphics(void*, int*, const molfile_graphics_t**)’: contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:284:3: note: in expansion of macro ‘TRASH’ 284 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:285:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 285 | fread(line, 1, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:291:3: note: in expansion of macro ‘TRASH’ 291 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:305:3: note: in expansion of macro ‘TRASH’ 305 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:306:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 306 | fread(line, 1, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:307:3: note: in expansion of macro ‘TRASH’ 307 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:311:3: note: in expansion of macro ‘TRASH’ 311 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:313:3: note: in expansion of macro ‘TRASH’ 313 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:318:3: note: in expansion of macro ‘TRASH’ 318 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:319:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 319 | fread(line, 1, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:320:3: note: in expansion of macro ‘TRASH’ 320 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:328:3: note: in expansion of macro ‘TRASH’ 328 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:329:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 329 | fread(line, 1, 80, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:330:3: note: in expansion of macro ‘TRASH’ 330 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:354:3: note: in expansion of macro ‘TRASH’ 354 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:355:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 355 | fread(vertex, 3 * sizeof(float), nvert, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:356:3: note: in expansion of macro ‘TRASH’ 356 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:357:3: note: in expansion of macro ‘TRASH’ 357 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:358:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 358 | fread(access, 3 * sizeof(float), nvert, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:359:3: note: in expansion of macro ‘TRASH’ 359 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:360:3: note: in expansion of macro ‘TRASH’ 360 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:361:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 361 | fread(normal, 3 * sizeof(float), nvert, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:362:3: note: in expansion of macro ‘TRASH’ 362 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:371:5: note: in expansion of macro ‘TRASH’ 371 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:372:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 372 | fread(triangle, 3 * sizeof(int), ntriangles, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:373:5: note: in expansion of macro ‘TRASH’ 373 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:374:5: note: in expansion of macro ‘TRASH’ 374 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:375:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 375 | fread(properties, 3 * sizeof(float), nvert, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:394:5: note: in expansion of macro ‘TRASH’ 394 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:395:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 395 | fread(striangle, sizeof(short), 3 * ntriangles, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:396:5: note: in expansion of macro ‘TRASH’ 396 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:280:20: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 280 | #define TRASH fread(trash, 4, 1, infile) | ~~~~~^~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:397:5: note: in expansion of macro ‘TRASH’ 397 | TRASH; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:398:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 398 | fread(properties, sizeof(float), 3 * nvert, infile); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:40: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:47: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function] 160 | static int get_pte_idx_from_string(const char *label) { | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp:51: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp: In function ‘void* open_grid_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:84:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 84 | fread(&dataBegin, sizeof(int), 1, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:60: contrib/uiuc/plugins/molfile_plugin/src/fortread.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: ‘void strnwscpy(char*, const char*, int)’ defined but not used [-Wunused-function] 133 | static void strnwscpy(char *target, const char *source, const int len) { | ^~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: ‘int fort_get_endian_reclen(int, int, int, int*, int*)’ defined but not used [-Wunused-function] 55 | static int fort_get_endian_reclen(int reclen, int word0, int word1, | ^~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: ‘int fort_eat_recmark(FILE*, int)’ defined but not used [-Wunused-function] 36 | static int fort_eat_recmark(FILE *ifp, int recmarklen) { | ^~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:59: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: ‘void swap8_aligned(void*, long int)’ defined but not used [-Wunused-function] 124 | static void swap8_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:32: In function ‘strncat’, inlined from ‘vtf_parse_atom’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:538:9, inlined from ‘vtf_parse_structure’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:812:24, inlined from ‘_vtf_open_file_read’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:944:5, inlined from ‘vtf_open_file_read’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:970:10: /usr/include/bits/string_fortified.h:138:10: warning: ‘__strncat_chk’ output may be truncated copying 200 bytes from a string of length 254 [-Wstringop-truncation] 138 | return __builtin___strncat_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 139 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncat’, inlined from ‘vtf_parse_atom’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:629:7, inlined from ‘vtf_parse_structure’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:812:24, inlined from ‘_vtf_open_file_read’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:944:5, inlined from ‘vtf_open_file_read’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:970:10: /usr/include/bits/string_fortified.h:138:10: warning: ‘__strncat_chk’ output may be truncated copying 200 bytes from a string of length 254 [-Wstringop-truncation] 138 | return __builtin___strncat_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 139 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30: contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function ‘int mdio_readline(md_file*, char*, int, int)’: contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:426:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 426 | fgets(buf, n, mf->f); | ~~~~~^~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:48, from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: ‘void swap2_aligned(void*, long int)’ defined but not used [-Wunused-function] 96 | static void swap2_aligned(void *v, long ndata) { | ^~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: ‘void swap8_unaligned(void*, long int)’ defined but not used [-Wunused-function] 65 | static void swap8_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: ‘void swap4_unaligned(void*, long int)’ defined but not used [-Wunused-function] 46 | static void swap4_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: ‘void swap2_unaligned(void*, long int)’ defined but not used [-Wunused-function] 32 | static void swap2_unaligned(void *v, long ndata) { | ^~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:900, from contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:29: In function ‘sprintf’, inlined from ‘vtf_error’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:147:3, inlined from ‘vtf_read_bonds’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:1203:5, inlined from ‘vtf_read_bonds’ at contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:1193:12: /usr/include/bits/stdio2.h:30:10: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data(void*, int, float*, float*)’: contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:276:45: warning: variable ‘total’ set but not used [-Wunused-but-set-variable] 276 | int x, y, z, xsize, ysize, zsize, xysize, total; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data_ex(void*, molfile_volumetric_readwrite_t*)’: contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:338:45: warning: variable ‘total’ set but not used [-Wunused-but-set-variable] 338 | int x, y, z, xsize, ysize, zsize, xysize, total; | ^~~~~ contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:371:15: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 371 | fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function ‘int read_vtk_data(void*, int, float*, float*)’: contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:306:15: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 306 | fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:72: contrib/uiuc/plugins/include/vmdconio.h: At global scope: contrib/uiuc/plugins/include/vmdconio.h:56:12: warning: ‘int vmdcon_printf(int, const char*, ...)’ defined but not used [-Wunused-function] 56 | static int vmdcon_printf(int lvl, const char *fmt, ...) { | ^~~~~~~~~~~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:28: In function ‘strncpy’, inlined from ‘g96_header(md_file*, char*, int, float*) [clone .constprop.0]’ at contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:650:32: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 500 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In function ‘strncpy’, inlined from ‘gro_header(md_file*, char*, int, float*, int*, int)’ at contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1018:33: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying between 1 and 80 bytes from a string of length 500 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘open_gro_read(char const*, char const*, int*)’ at contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:103:12: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 80 bytes from a string of length 80 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_timestep(void*, int, molfile_timestep_t*)’: contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:288:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 288 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:297:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 297 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_bonds_aux(void*, int*, int**, int**, float**)’: contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:365:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 365 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:387:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 387 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:395:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 395 | fgets(nextline, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:455:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 455 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘int read_xbgf_structure(void*, int*, molfile_atom_t*)’: contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:241:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 241 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:250:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 250 | fgets(line, LINESIZE, bgf->file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function ‘void* open_xbgf_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:72:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 72 | fgets(line, LINESIZE, fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:27: In function ‘strncpy’, inlined from ‘get_xbgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:143:12, inlined from ‘read_xbgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:306:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 223 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_xbgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:148:12, inlined from ‘read_xbgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:306:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 213 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_xbgf_coordinates(char const*, float*, float*, float*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:153:12, inlined from ‘read_xbgf_timestep(void*, int, molfile_timestep_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:306:25: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 10 bytes from a string of length 203 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_xbgf_fields(char const*, char*, char*, char*, char*, float*, float*, int*, int*, char*, float*, float*, float*, float*, char*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:172:10, inlined from ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:259:20: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 241 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_xbgf_fields(char const*, char*, char*, char*, char*, float*, float*, int*, int*, char*, float*, float*, float*, float*, char*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:177:10, inlined from ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:259:20: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 235 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_xbgf_fields(char const*, char*, char*, char*, char*, float*, float*, int*, int*, char*, float*, float*, float*, float*, char*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:182:10, inlined from ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:259:20: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 154 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘get_xbgf_fields(char const*, char*, char*, char*, char*, float*, float*, int*, int*, char*, float*, float*, float*, float*, char*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:197:10, inlined from ‘read_xbgf_structure(void*, int*, molfile_atom_t*)’ at contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:259:20: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 192 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/hash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘void eatline(FILE*)’: contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:238:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 238 | fgets(readbuf, 1024, fd); // go on to next line | ~~~~~^~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function ‘void* open_xsf_read(const char*, const char*, int*)’: contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:408:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 408 | fgets(readbuf, 256, xsf->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:442:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 442 | fgets(readbuf, 256, xsf->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:444:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 444 | fgets(readbuf, 256, xsf->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:446:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 446 | fgets(readbuf, 256, xsf->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:448:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 448 | fgets(readbuf, 256, xsf->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:450:20: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 450 | fgets(readbuf, 256, xsf->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:473:22: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 473 | fgets(readbuf, 256, xsf->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:508:16: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 508 | fgets(readbuf, 256, xsf->fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:37: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘int get_pte_idx_from_string(const char*)’ defined but not used [-Wunused-function] 160 | static int get_pte_idx_from_string(const char *label) { | ^~~~~~~~~~~~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/inthash.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/inthash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Parse.cpp -o build/temp.linux-x86_64-3.9/layer0/Parse.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:29: In function ‘strncpy’, inlined from ‘open_xsf_read(char const*, char const*, int*)’ at contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:438:22: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 255 bytes from a string of length 255 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘read_xsf_structure(void*, int*, molfile_atom_t*) [clone .part.0]’ at contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:597:20: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Pixmap.cpp -o build/temp.linux-x86_64-3.9/layer0/Pixmap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:57: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: ‘get_pte_idx_from_string’ defined but not used [-Wunused-function] 160 | static int get_pte_idx_from_string(const char *label) { | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:519, from contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:53: In function ‘strncpy’, inlined from ‘read_xyz_structure’ at contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:133:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ output may be truncated copying 16 bytes from a string of length 1023 [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘read_xyz_structure’ at contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:127:7: /usr/include/bits/string_fortified.h:95:10: warning: ‘strncpy’ specified bound 16 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Block.cpp -o build/temp.linux-x86_64-3.9/layer0/Block.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/PostProcess.cpp -o build/temp.linux-x86_64-3.9/layer0/PostProcess.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/CarveHelper.cpp -o build/temp.linux-x86_64-3.9/layer0/CarveHelper.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from layer0/CarveHelper.cpp:8: layer0/CarveHelper.h: In constructor ‘CarveHelper::CarveHelper(PyMOLGlobals*, float, const float*, std::size_t)’: layer0/CarveHelper.h:23:9: warning: ‘CarveHelper::m_cutoff’ will be initialized after [-Wreorder] 23 | float m_cutoff; | ^~~~~~~~ layer0/CarveHelper.h:22:16: warning: ‘const float* CarveHelper::m_vertices’ [-Wreorder] 22 | const float* m_vertices; | ^~~~~~~~~~ layer0/CarveHelper.cpp:20:1: warning: when initialized here [-Wreorder] 20 | CarveHelper::CarveHelper(PyMOLGlobals* G, float cutoff, const float* vertices, | ^~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/ShaderMgr.cpp -o build/temp.linux-x86_64-3.9/layer0/ShaderMgr.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/ContourSurf.cpp -o build/temp.linux-x86_64-3.9/layer0/ContourSurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Isosurf.h:24, from layer0/ContourSurf.cpp:11: layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int}]’ layer0/ContourSurf.cpp:409:37: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 100 | assert(sizeof...(pos) <= n_dim()); | ~~~~~~~~~~~~~~~^~~~~~~~~~ layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int, int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {long unsigned int, long unsigned int, long unsigned int, int}]’ layer0/ContourSurf.cpp:419:36: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Crystal.cpp -o build/temp.linux-x86_64-3.9/layer0/Crystal.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Deferred.cpp -o build/temp.linux-x86_64-3.9/layer0/Deferred.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Err.cpp -o build/temp.linux-x86_64-3.9/layer0/Err.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Feedback.cpp -o build/temp.linux-x86_64-3.9/layer0/Feedback.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Field.cpp -o build/temp.linux-x86_64-3.9/layer0/Field.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer0/Field.cpp: In function ‘PyObject* FieldAsNumPyArray(CField*, short int)’: layer0/Field.cpp:83:1: warning: label ‘ok_except1’ defined but not used [-Wunused-label] 83 | ok_except1: | ^~~~~~~~~~ layer0/Field.cpp: In function ‘CField* FieldNewFromPyList(PyMOLGlobals*, PyObject*)’: layer0/Field.cpp:179:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 179 | ok = ok && I->size() == size; | ~~~~~~~~~~^~~~~~~ In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Field.cpp:26: layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’ layer0/Field.cpp:343:17: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 100 | assert(sizeof...(pos) <= n_dim()); | ~~~~~~~~~~~~~~~^~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/File.cpp -o build/temp.linux-x86_64-3.9/layer0/File.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/GenericBuffer.cpp -o build/temp.linux-x86_64-3.9/layer0/GenericBuffer.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/GraphicsUtil.cpp -o build/temp.linux-x86_64-3.9/layer0/GraphicsUtil.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Isosurf.cpp -o build/temp.linux-x86_64-3.9/layer0/Isosurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/ShaderPrg.cpp -o build/temp.linux-x86_64-3.9/layer0/ShaderPrg.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Isosurf.h:24, from layer0/Isosurf.cpp:25: layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int, int}]’: layer0/Isosurf.cpp:552:24: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 100 | assert(sizeof...(pos) <= n_dim()); | ~~~~~~~~~~~~~~~^~~~~~~~~~ layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’: layer0/Isosurf.cpp:1459:32: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = PointType; SizeTs = {int, int, int, int}]’: layer0/Field.h:134:26: required from ‘T* CFieldTyped::ptr(SizeTs ...) [with SizeTs = {int, int, int, int}; T = PointType]’ layer0/Isosurf.cpp:1617:19: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’ layer0/Field.h:144:26: required from ‘T& CFieldTyped::get(SizeTs ...) [with SizeTs = {int, int, int}; T = int]’ layer0/Isosurf.cpp:1456:15: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int, int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int, int}]’ layer0/Field.h:144:26: required from ‘T& CFieldTyped::get(SizeTs ...) [with SizeTs = {int, int, int, int}; T = int]’ layer0/Isosurf.cpp:1487:13: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Sphere.cpp -o build/temp.linux-x86_64-3.9/layer0/Sphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Tetsurf.cpp -o build/temp.linux-x86_64-3.9/layer0/Tetsurf.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Map.cpp -o build/temp.linux-x86_64-3.9/layer0/Map.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Isosurf.h:24, from layer0/Tetsurf.cpp:24: layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int, int}]’: layer0/Tetsurf.cpp:802:18: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 100 | assert(sizeof...(pos) <= n_dim()); | ~~~~~~~~~~~~~~~^~~~~~~~~~ layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = PointType; SizeTs = {int, int, int, int}]’: layer0/Tetsurf.cpp:831:27: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’ layer0/Tetsurf.cpp:791:16: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’ layer0/Tetsurf.cpp:822:18: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Match.cpp -o build/temp.linux-x86_64-3.9/layer0/Match.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Texture.cpp -o build/temp.linux-x86_64-3.9/layer0/Texture.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Matrix.cpp -o build/temp.linux-x86_64-3.9/layer0/Matrix.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Tracker.cpp -o build/temp.linux-x86_64-3.9/layer0/Tracker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Triangle.cpp -o build/temp.linux-x86_64-3.9/layer0/Triangle.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/MemoryDebug.cpp -o build/temp.linux-x86_64-3.9/layer0/MemoryDebug.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer0/MemoryDebug.cpp: In function ‘void* VLADeleteRaw(void*, int, unsigned int)’: layer0/MemoryDebug.cpp:223:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 223 | if(index < -old_size) | ~~~~~~^~~~~~~~~~~ layer0/MemoryDebug.cpp:235:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 235 | (index < vla->size) && ((count + index) <= vla->size)) { | ~~~~~~^~~~~~~~~~~ layer0/MemoryDebug.cpp: In function ‘void* VLAInsertRaw(void*, int, unsigned int)’: layer0/MemoryDebug.cpp:256:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 256 | if(index < -old_size) | ~~~~~~^~~~~~~~~~~ layer0/MemoryDebug.cpp:263:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 263 | if(index > old_size) | ~~~~~~^~~~~~~~~~ layer0/MemoryDebug.cpp:266:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 266 | if((index >= 0) && (count > 0) && (index <= old_size)) { | ~~~~~~^~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/MemoryUsage.cpp -o build/temp.linux-x86_64-3.9/layer0/MemoryUsage.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer0/MemoryUsage.cpp: In function ‘size_t pymol::memory_usage()’: layer0/MemoryUsage.cpp:38:21: warning: use of assignment suppression and length modifier together in gnu_scanf format [-Wformat=] 38 | std::fscanf(fp, "%*zu%zu", &vmRSS); | ^~~~~~~~~ layer0/MemoryUsage.cpp:38:16: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 38 | std::fscanf(fp, "%*zu%zu", &vmRSS); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/MyPNG.cpp -o build/temp.linux-x86_64-3.9/layer0/MyPNG.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer0/MyPNG.cpp: In function ‘int MyPNGWrite(const char*, const pymol::Image&, float, int, int, float, float, png_outbuf_t*)’: layer0/MyPNG.cpp:299:20: warning: comparison of integer expressions of different signedness: ‘png_uint_32’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 299 | for(k = 0; k < height; k++) | ~~^~~~~~~~ layer0/MyPNG.cpp:340:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 340 | for(b = 0; b < height; b++) { | ~~^~~~~~~~ layer0/MyPNG.cpp:341:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 341 | for(a = 0; a < width; a++) { | ~~^~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUTHel10.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUTHel10.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUTHel12.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUTHel12.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUTHel18.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUTHel18.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontType.cpp -o build/temp.linux-x86_64-3.9/layer1/FontType.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Util.cpp -o build/temp.linux-x86_64-3.9/layer0/Util.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Util2.cpp -o build/temp.linux-x86_64-3.9/layer0/Util2.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Movie.cpp -o build/temp.linux-x86_64-3.9/layer1/Movie.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Vector.cpp -o build/temp.linux-x86_64-3.9/layer0/Vector.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/Word.cpp -o build/temp.linux-x86_64-3.9/layer0/Word.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/ccealignmodule.cpp -o build/temp.linux-x86_64-3.9/layer0/ccealignmodule.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from include/tnt/tnt.h:49, from layer0/ccealignmodule.cpp:39: include/tnt/tnt_array2d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, TNT::Array2D&)’: include/tnt/tnt_array2d_utils.h:62:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 62 | for (int i=0; i>(std::istream&, TNT::Array3D&)’: include/tnt/tnt_array3d_utils.h:47:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 47 | for (int i=0; i>(std::istream&, TNT::Fortran_Array2D&)’: include/tnt/tnt_fortran_array2d_utils.h:61:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 61 | for (int i=1; i<=M; i++) | ^~~ include/tnt/tnt_fortran_array2d_utils.h:67:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 67 | A = B; | ^ In file included from include/tnt/tnt.h:57, from layer0/ccealignmodule.cpp:39: include/tnt/tnt_fortran_array3d_utils.h: In function ‘std::istream& TNT::operator>>(std::istream&, TNT::Fortran_Array3D&)’: include/tnt/tnt_fortran_array3d_utils.h:65:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 65 | for (int i=1; i<=M; i++) | ^~~ include/tnt/tnt_fortran_array3d_utils.h:70:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 70 | A = B; | ^ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Ortho.cpp -o build/temp.linux-x86_64-3.9/layer1/Ortho.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/marching_cubes.cpp -o build/temp.linux-x86_64-3.9/layer0/marching_cubes.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer0/marching_cubes.cpp: In function ‘mc::Mesh mc::march(const mc::Field&, float, bool)’: layer0/marching_cubes.cpp:517:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 517 | for (int z = 0; z < zDim; ++z) { | ~~^~~~~~ layer0/marching_cubes.cpp:550:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 550 | for (int z = 0; z < zEnd; ++z) { | ~~^~~~~~ layer0/marching_cubes.cpp:603:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 603 | if (z == zEnd - 1) { | ~~^~~~~~~~~~~ layer0/marching_cubes.cpp:608:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 608 | if (z == zEnd - 1) { | ~~^~~~~~~~~~~ layer0/marching_cubes.cpp: In function ‘void mc::calculateNormals(mc::Mesh&)’: layer0/marching_cubes.cpp:681:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 681 | for (int i = 0; i < vertexCount; ++i) { | ~~^~~~~~~~~~~~~ layer0/marching_cubes.cpp:686:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 686 | for (int i = 0; i < triangleCount; ++i) { | ~~^~~~~~~~~~~~~~~ layer0/marching_cubes.cpp:720:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 720 | for (int i = 0; i < vertexCount; ++i) { | ~~^~~~~~~~~~~~~ layer1/Ortho.cpp:783:6: warning: ‘void OrthoKeyCmmd(PyMOLGlobals*, unsigned char)’ defined but not used [-Wunused-function] 783 | void OrthoKeyCmmd(PyMOLGlobals * G, unsigned char k) | ^~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer0/os_gl.cpp -o build/temp.linux-x86_64-3.9/layer0/os_gl.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Basis.cpp -o build/temp.linux-x86_64-3.9/layer1/Basis.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from /usr/include/string.h:519, from /usr/include/python3.9/Python.h:30, from layer0/os_python.h:34, from layer1/Ortho.cpp:24: In function ‘strcat’, inlined from ‘OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at layer1/Ortho.cpp:332:13: /usr/include/bits/string_fortified.h:130:33: warning: ‘strcat’ accessing 4611686018427387985 or more bytes at offsets [80, 261200] and [-4611686018427387904, 4611686018427387903] may overlap 1 byte at offset [80, 9223372036854775807] [-Wrestrict] 130 | return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strcat’, inlined from ‘OrthoSpecial(PyMOLGlobals*, int, int, int, int)’ at layer1/Ortho.cpp:349:13: /usr/include/bits/string_fortified.h:130:33: warning: ‘strcat’ accessing 4611686018427387985 or more bytes at offsets [80, 261200] and [-4611686018427387904, 4611686018427387903] may overlap 1 byte at offset [80, 9223372036854775807] [-Wrestrict] 130 | return __builtin___strcat_chk (__dest, __src, __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/P.cpp -o build/temp.linux-x86_64-3.9/layer1/P.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/ButMode.cpp -o build/temp.linux-x86_64-3.9/layer1/ButMode.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer1/P.cpp: In function ‘int WrapperObjectAssignSubScript(PyObject*, PyObject*, PyObject*)’: layer1/P.cpp:825:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 825 | if (strlen(valstr) > ap->maxlen) { | ~~~~~~~~~~~~~~~^~~~~~~~~~~~ layer1/P.cpp:849:18: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 849 | if (valint == -1 && PyErr_Occurred()) | ~~~~~~~^~~~~ layer1/P.cpp: In function ‘int PAutoBlock(PyMOLGlobals*)’: layer1/P.cpp:2288:27: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘long unsigned int’ [-Wsign-compare] 2288 | if (SavedThread[a].id == id) { | ~~~~~~~~~~~~~~~~~~^~~~~ layer1/P.cpp: In function ‘int PIsGlutThread()’: layer1/P.cpp:2314:39: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 2314 | return (PyThread_get_thread_ident() == P_glut_thread_id); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ layer1/P.cpp: At global scope: layer1/P.cpp:2422:13: warning: ‘void PLockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function] 2422 | static void PLockAPIWhileBlocked(PyMOLGlobals * G) | ^~~~~~~~~~~~~~~~~~~~ layer1/P.cpp:2411:13: warning: ‘void PUnlockAPIWhileBlocked(PyMOLGlobals*)’ defined but not used [-Wunused-function] 2411 | static void PUnlockAPIWhileBlocked(PyMOLGlobals * G) | ^~~~~~~~~~~~~~~~~~~~~~ layer1/P.cpp: In function ‘PLabelAtomAlt(PyMOLGlobals*, AtomInfoType*, char const*, char const*, int)’: layer1/P.cpp:322:12: warning: ‘strncpy’ specified bound 1024 equals destination size [-Wstringop-truncation] 322 | strncpy(label, origexpr, OrthoLineLength); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/ButMode.cpp:22: layer1/ButMode.cpp: In function ‘void ButModeFree(PyMOLGlobals*)’: layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CButMode’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}} layer1/ButMode.cpp:144:3: note: in expansion of macro ‘DeleteP’ 144 | DeleteP(G->ButMode); | ^~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/PConv.cpp -o build/temp.linux-x86_64-3.9/layer1/PConv.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/CGO.cpp -o build/temp.linux-x86_64-3.9/layer1/CGO.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer1/PConv.cpp: In function ‘int PConvPyListToBitmask(PyObject*, int*, ov_size)’: layer1/PConv.cpp:83:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 83 | for(int i = 0; i < ll; i++) | ~~^~~~ layer1/PConv.cpp: In function ‘PyObject* PConvLabPosVecToPyList(const std::vector&)’: layer1/PConv.cpp:1194:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1194 | for (int a = 0; a < vec.size(); a++) { | ~~^~~~~~~~~~~~ layer1/CGO.cpp: In function ‘void CheckAttributesForUsage(const CGO*, AttribDataDesc&, AttribDataDesc&, CGO*, bool&)’: layer1/CGO.cpp:10842:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 10842 | for (auto idx = 0; idx < attrIdx; ++idx){ | ~~~~^~~~~~~~~ layer1/CGO.cpp: In function ‘void PopulateOpsIntoStructuresForConversion(std::map&, std::map >&, AttribDataDesc&, AttribDataDesc&, int&, bool)’: layer1/CGO.cpp:10920:37: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 10920 | if (attrOp->incr_vertices != vertsperpickinfo){ | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ layer1/CGO.cpp: In function ‘CGO* CGOConvertToShader(const CGO*, AttribDataDesc&, AttribDataDesc&, int, GenericBuffer<34962>::buffer_layout, bool, int*, int, int)’: layer1/CGO.cpp:11222:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 11222 | for (auto idx = 0; idx < attrData.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~ layer1/CGO.cpp:11234:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 11234 | for (auto idx = 0; idx < attrData.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~ layer1/CGO.cpp:11243:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 11243 | for (int nxt = 0; nxt < attribOp->incr_vertices; ++nxt){ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Picking.cpp -o build/temp.linux-x86_64-3.9/layer1/Picking.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Pop.cpp -o build/temp.linux-x86_64-3.9/layer1/Pop.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from layer1/Pop.cpp:22: layer1/Pop.cpp: In function ‘void PopFree(PyMOLGlobals*)’: layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CPop’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}} layer1/Pop.cpp:54:3: note: in expansion of macro ‘DeleteP’ 54 | DeleteP(G->Pop); | ^~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/PyMOLObject.cpp -o build/temp.linux-x86_64-3.9/layer1/PyMOLObject.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Ray.cpp -o build/temp.linux-x86_64-3.9/layer1/Ray.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer1/Ray.cpp: In function ‘void RayRender(CRay*, unsigned int*, double, float, int, unsigned int*)’: layer1/Ray.cpp:6065:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6065 | if(x_stop > width) | ~~~~~~~^~~~~~~ layer1/Ray.cpp:6067:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6067 | if(y_stop > height) | ~~~~~~~^~~~~~~~ layer1/Ray.cpp:6148:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6148 | for(y = 0; y < height; y++) | ~~^~~~~~~~ layer1/Ray.cpp:6149:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6149 | for(x = 0; x < width; x++) { | ~~^~~~~~~ layer1/Ray.cpp:6160:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6160 | if(x < (width - 1)) { | ~~^~~~~~~~~~~~~ layer1/Ray.cpp:6171:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6171 | if(y < (height - 1)) { | ~~^~~~~~~~~~~~~~ layer1/Ray.cpp:6232:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6232 | for(y = 0; y < height; y++) | ~~^~~~~~~~ layer1/Ray.cpp:6233:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6233 | for(x = 0; x < width; x++) { | ~~^~~~~~~ layer1/Ray.cpp:6243:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6243 | if(x < (width - 1)) { | ~~^~~~~~~~~~~~~ layer1/Ray.cpp:6255:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6255 | if(y < (height - 1)) { | ~~^~~~~~~~~~~~~~ layer1/Ray.cpp:6306:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6306 | for(y = 0; y < height; y++){ | ~~^~~~~~~~ layer1/Ray.cpp:6326:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6326 | for(x = 0; x < width; x++) { | ~~^~~~~~~ layer1/Ray.cpp:6345:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6345 | if(x < (width - 1)) { | ~~^~~~~~~~~~~~~ layer1/Ray.cpp:6359:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6359 | if(y < (height - 1)) { | ~~^~~~~~~~~~~~~~ layer1/Ray.cpp:6373:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6373 | if(x && (y < (height - 1))) { | ~~^~~~~~~~~~~~~~ layer1/Ray.cpp:6380:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6380 | if(y && (x < (width - 1))) { | ~~^~~~~~~~~~~~~ layer1/Ray.cpp:6387:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6387 | if((y < (height - 1)) && (x < (width - 1))) { | ~~^~~~~~~~~~~~~~ layer1/Ray.cpp:6387:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6387 | if((y < (height - 1)) && (x < (width - 1))) { | ~~^~~~~~~~~~~~~ layer1/Ray.cpp:6543:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6543 | for(y = 0; y < height; y++) { | ~~^~~~~~~~ layer1/Ray.cpp:6544:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 6544 | for(x = 0; x < width; x++) { | ~~^~~~~~~ layer1/CGO.cpp: In function ‘CGOCombineBeginEnd(CGO const*, int, bool)’: layer1/CGO.cpp:1745:23: warning: ‘firstAlpha’ may be used uninitialized in this function [-Wmaybe-uninitialized] 1745 | CGOAlpha(cgo, firstAlpha); | ~~~~~~~~^~~~~~~~~~~~~~~~~ layer1/Ray.cpp: In function ‘RayRenderVRML2(_CRay*, int, int, char**, float, float, float, float, float)’: layer1/Ray.cpp:1535:20: warning: ‘%s’ directive writing up to 1023 bytes into a region of size between 0 and 914 [-Wformat-overflow=] 1535 | "%s" | ^~ ...... 1540 | vert2[2] - mid[2], axis[0], axis[1], axis[2], angle, geometry); | ~~~~~~~~ layer1/Ray.cpp:1530:18: note: ‘sprintf’ output between 116 and 3302 bytes into a destination of size 1024 1530 | sprintf(buffer, | ~~~~~~~^~~~~~~~ 1531 | "Transform {\n" | ~~~~~~~~~~~~~~~ 1532 | " translation %8.6f %8.6f %8.6f\n" | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1533 | " rotation %8.6f %8.6f %8.6f %8.6f\n" | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1534 | " children [\n" | ~~~~~~~~~~~~~~~ 1535 | "%s" | ~~~~ 1536 | " ]\n" | ~~~~~~ 1537 | "}\n", | ~~~~~~ 1538 | vert2[0] - mid[0], | ~~~~~~~~~~~~~~~~~~ 1539 | vert2[1] - mid[1], | ~~~~~~~~~~~~~~~~~~ 1540 | vert2[2] - mid[2], axis[0], axis[1], axis[2], angle, geometry); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer1/Ray.cpp: In function ‘RayTraceThread(_CRayThreadInfo*)’: layer1/Ray.cpp:3606:39: warning: ‘hl’ may be used uninitialized in this function [-Wmaybe-uninitialized] 3606 | compute_background_for_pixel(bkrd_uc, isOutsideInY, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ 3607 | bg_image_mode, bg_image_tilesize, bg_rgb, bg_image_linear, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3608 | (unsigned char*) T->bkrd_data, T->bgWidth, T->bgHeight, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3609 | x, wr, hl, hpixelx, orig_opaque_back ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Rep.cpp -o build/temp.linux-x86_64-3.9/layer1/Rep.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Scene.cpp -o build/temp.linux-x86_64-3.9/layer1/Scene.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer1/Scene.cpp: In function ‘int SceneViewEqual(float*, float*)’: layer1/Scene.cpp:127:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 127 | for(i = 0; i < cSceneViewSize; i++) { | ~~^~~~~~~~~~~~~~~~ layer1/Scene.cpp: In function ‘void SceneFree(PyMOLGlobals*)’: layer1/Scene.cpp:4071:3: warning: deleting object of polymorphic class type ‘CScene’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 4071 | delete G->Scene; | ^~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/COLLADA.cpp -o build/temp.linux-x86_64-3.9/layer1/COLLADA.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SceneMouse.cpp -o build/temp.linux-x86_64-3.9/layer1/SceneMouse.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Character.cpp -o build/temp.linux-x86_64-3.9/layer1/Character.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Color.cpp -o build/temp.linux-x86_64-3.9/layer1/Color.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer1/SceneMouse.cpp: In function ‘void SceneClickPickBond(PyMOLGlobals*, int, int, int, const NamedPicking&)’: layer1/SceneMouse.cpp:513:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 513 | if (atIndex == LastPicked.src.index) | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ layer1/SceneMouse.cpp: In function ‘SceneClickTransformObject(PyMOLGlobals*, pymol::CObject*, NamedPicking const&, int, bool)’: layer1/SceneMouse.cpp:455:32: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 237 [-Wformat-truncation=] 455 | " You clicked %s -> (%s)\n", buffer.c_str(), name ENDFB(G); | ^~ ~~~~ In file included from /usr/include/stdio.h:900, from /usr/include/c++/11/cstdio:42, from /usr/include/c++/11/ext/string_conversions.h:43, from /usr/include/c++/11/bits/basic_string.h:6608, from /usr/include/c++/11/string:55, from /usr/include/c++/11/bits/locale_classes.h:40, from /usr/include/c++/11/bits/ios_base.h:41, from /usr/include/c++/11/ios:42, from /usr/include/c++/11/ostream:38, from include/pymol/zstring_view.h:12, from layer1/SceneMouse.h:4, from layer1/SceneMouse.cpp:1: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output 21 or more bytes (assuming 276) into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ layer1/Color.cpp: In function ‘ObjectGadgetRamp* ColorGetRamp(PyMOLGlobals*, int)’: layer1/Color.cpp:180:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 180 | if (index < I->Ext.size()) { | ~~~~~~^~~~~~~~~~~~~~~ layer1/Color.cpp: In function ‘int ColorExtFromPyList(PyMOLGlobals*, PyObject*, int)’: layer1/Color.cpp:501:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 501 | for (int a = 0; a < n_ext; ++a) { | ~~^~~~~~~ In file included from /usr/include/c++/11/cassert:44, from /usr/include/glm/detail/setup.hpp:3, from /usr/include/glm/detail/qualifier.hpp:3, from /usr/include/glm/detail/type_vec2.hpp:6, from /usr/include/glm/ext/vector_bool2.hpp:5, from /usr/include/glm/vec2.hpp:5, from layer0/GenericBuffer.h:12, from layer0/ShaderMgr.h:24, from layer1/Scene.h:29, from layer3/Executive.h:35, from layer1/Color.cpp:31: layer1/Color.cpp:515:18: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 515 | assert(a_new <= I->Ext.size()); | ~~~~~~^~~~~~~~~~~~~~~~ layer1/Color.cpp:518:15: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 518 | if (a_new == I->Ext.size()) { | ~~~~~~^~~~~~~~~~~~~~~~ layer1/Color.cpp: In function ‘int ColorFromPyList(PyMOLGlobals*, PyObject*, int)’: layer1/Color.cpp:569:44: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 569 | if (partial_restore && I->Color.size() > index) { | ~~~~~~~~~~~~~~~~^~~~~~~ layer1/Color.cpp:575:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 575 | if (index >= I->Color.size()) { | ~~~~~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/cassert:44, from /usr/include/glm/detail/setup.hpp:3, from /usr/include/glm/detail/qualifier.hpp:3, from /usr/include/glm/detail/type_vec2.hpp:6, from /usr/include/glm/ext/vector_bool2.hpp:5, from /usr/include/glm/vec2.hpp:5, from layer0/GenericBuffer.h:12, from layer0/ShaderMgr.h:24, from layer1/Scene.h:29, from layer3/Executive.h:35, from layer1/Color.cpp:31: layer1/Color.cpp:576:30: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 576 | assert(I->Color.size() == index); | ~~~~~~~~~~~~~~~~^~~~~~~~ layer1/Color.cpp: In function ‘int ColorGetIndex(PyMOLGlobals*, const char*)’: layer1/Color.cpp:683:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 683 | if((i < I->Color.size()) && (i >= 0)) | ~~^~~~~~~~~~~~~~~~~ layer1/Color.cpp: In function ‘const char* ColorGetName(PyMOLGlobals*, int)’: layer1/Color.cpp:764:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 764 | if((index >= 0) && (index < I->Color.size())) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer1/Color.cpp:776:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 776 | if (a < I->Ext.size()) { | ~~^~~~~~~~~~~~~~~ layer1/Color.cpp: In function ‘int ColorGetStatus(PyMOLGlobals*, int)’: layer1/Color.cpp:792:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 792 | if((index >= 0) && (index < I->Color.size())) { | ~~~~~~^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/cassert:44, from /usr/include/glm/detail/setup.hpp:3, from /usr/include/glm/detail/qualifier.hpp:3, from /usr/include/glm/detail/type_vec2.hpp:6, from /usr/include/glm/ext/vector_bool2.hpp:5, from /usr/include/glm/vec2.hpp:5, from layer0/GenericBuffer.h:12, from layer0/ShaderMgr.h:24, from layer1/Scene.h:29, from layer3/Executive.h:35, from layer1/Color.cpp:31: layer1/Color.cpp: In function ‘void ColorReset(PyMOLGlobals*)’: layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1026:3: note: in expansion of macro ‘reg_named_color’ 1026 | reg_named_color("white", 1.F, 1.F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1027:3: note: in expansion of macro ‘reg_named_color’ 1027 | reg_named_color("black", 0.F, 0.F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1028:3: note: in expansion of macro ‘reg_named_color’ 1028 | reg_named_color("blue", 0.F, 0.F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1029:3: note: in expansion of macro ‘reg_named_color’ 1029 | reg_named_color("green", 0.F, 1.F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1030:3: note: in expansion of macro ‘reg_named_color’ 1030 | reg_named_color("red", 1.F, 0.F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1031:3: note: in expansion of macro ‘reg_named_color’ 1031 | reg_named_color("cyan", 0.F, 1.F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1032:3: note: in expansion of macro ‘reg_named_color’ 1032 | reg_named_color("yellow", 1.F, 1.F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1033:3: note: in expansion of macro ‘reg_named_color’ 1033 | reg_named_color("dash", 1.F, 1.F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1034:3: note: in expansion of macro ‘reg_named_color’ 1034 | reg_named_color("magenta", 1.F, 0.F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1035:3: note: in expansion of macro ‘reg_named_color’ 1035 | reg_named_color("salmon", 1.F, 0.6F, 0.6F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1036:3: note: in expansion of macro ‘reg_named_color’ 1036 | reg_named_color("lime", 0.5F, 1.F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1037:3: note: in expansion of macro ‘reg_named_color’ 1037 | reg_named_color("slate", 0.5F, 0.5F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1038:3: note: in expansion of macro ‘reg_named_color’ 1038 | reg_named_color("hotpink", 1.F, 0.F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1039:3: note: in expansion of macro ‘reg_named_color’ 1039 | reg_named_color("orange", 1.F, 0.5F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1040:3: note: in expansion of macro ‘reg_named_color’ 1040 | reg_named_color("chartreuse", 0.5F, 1.F, 0.F); /* AKA puke green */ | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1041:3: note: in expansion of macro ‘reg_named_color’ 1041 | reg_named_color("limegreen", 0.F, 1.F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1042:3: note: in expansion of macro ‘reg_named_color’ 1042 | reg_named_color("purpleblue", 0.5F, 0.F, 1.F); /* legacy name */ | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1043:3: note: in expansion of macro ‘reg_named_color’ 1043 | reg_named_color("marine", 0.F, 0.5F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1044:3: note: in expansion of macro ‘reg_named_color’ 1044 | reg_named_color("olive", 0.77F, 0.7F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1045:3: note: in expansion of macro ‘reg_named_color’ 1045 | reg_named_color("purple", 0.75F, 0.F, 0.75F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1046:3: note: in expansion of macro ‘reg_named_color’ 1046 | reg_named_color("teal", 0.F, 0.75F, 0.75F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1047:3: note: in expansion of macro ‘reg_named_color’ 1047 | reg_named_color("ruby", 0.6F, 0.2F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1048:3: note: in expansion of macro ‘reg_named_color’ 1048 | reg_named_color("forest", 0.2F, 0.6F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1049:3: note: in expansion of macro ‘reg_named_color’ 1049 | reg_named_color("deepblue", 0.25F, 0.25F, 0.65F); /* was "deep" */ | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1050:3: note: in expansion of macro ‘reg_named_color’ 1050 | reg_named_color("grey", 0.5F, 0.5F, 0.5F); /* english spelling */ | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1051:3: note: in expansion of macro ‘reg_named_color’ 1051 | reg_named_color("gray", 0.5F, 0.5F, 0.5F); /* american spelling */ | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1052:3: note: in expansion of macro ‘reg_named_color’ 1052 | reg_named_color("carbon", 0.2F, 1.F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1053:3: note: in expansion of macro ‘reg_named_color’ 1053 | reg_named_color("nitrogen", 0.2F, 0.2F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1054:3: note: in expansion of macro ‘reg_named_color’ 1054 | reg_named_color("oxygen", 1.F, 0.3F, 0.3F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1055:3: note: in expansion of macro ‘reg_named_color’ 1055 | reg_named_color("hydrogen", 0.9F, 0.9F, 0.9F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1056:3: note: in expansion of macro ‘reg_named_color’ 1056 | reg_named_color("brightorange", 1.F, 0.7F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1057:3: note: in expansion of macro ‘reg_named_color’ 1057 | reg_named_color("sulfur", 0.9F, 0.775F, 0.25F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1058:3: note: in expansion of macro ‘reg_named_color’ 1058 | reg_named_color("tv_red", 1.F, 0.2F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1059:3: note: in expansion of macro ‘reg_named_color’ 1059 | reg_named_color("tv_green", 0.2F, 1.F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1060:3: note: in expansion of macro ‘reg_named_color’ 1060 | reg_named_color("tv_blue", 0.3F, 0.3F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1061:3: note: in expansion of macro ‘reg_named_color’ 1061 | reg_named_color("tv_yellow", 1.F, 1.F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1062:3: note: in expansion of macro ‘reg_named_color’ 1062 | reg_named_color("yelloworange", 1.F, 0.87F, 0.37F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1063:3: note: in expansion of macro ‘reg_named_color’ 1063 | reg_named_color("tv_orange", 1.F, 0.55F, 0.15F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1064:3: note: in expansion of macro ‘reg_named_color’ 1064 | reg_named_color("br0", 0.1F, 0.1F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1065:3: note: in expansion of macro ‘reg_named_color’ 1065 | reg_named_color("br1", 0.2F, 0.1F, 0.9F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1066:3: note: in expansion of macro ‘reg_named_color’ 1066 | reg_named_color("br2", 0.3F, 0.1F, 0.8F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1067:3: note: in expansion of macro ‘reg_named_color’ 1067 | reg_named_color("br3", 0.4F, 0.1F, 0.7F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1068:3: note: in expansion of macro ‘reg_named_color’ 1068 | reg_named_color("br4", 0.5F, 0.1F, 0.6F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1069:3: note: in expansion of macro ‘reg_named_color’ 1069 | reg_named_color("br5", 0.6F, 0.1F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1070:3: note: in expansion of macro ‘reg_named_color’ 1070 | reg_named_color("br6", 0.7F, 0.1F, 0.4F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1071:3: note: in expansion of macro ‘reg_named_color’ 1071 | reg_named_color("br7", 0.8F, 0.1F, 0.3F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1072:3: note: in expansion of macro ‘reg_named_color’ 1072 | reg_named_color("br8", 0.9F, 0.1F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1073:3: note: in expansion of macro ‘reg_named_color’ 1073 | reg_named_color("br9", 1.F, 0.1F, 0.1F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1074:3: note: in expansion of macro ‘reg_named_color’ 1074 | reg_named_color("pink", 1.F, 0.65F, 0.85F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1075:3: note: in expansion of macro ‘reg_named_color’ 1075 | reg_named_color("firebrick", 0.698F, 0.13F, 0.13F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1076:3: note: in expansion of macro ‘reg_named_color’ 1076 | reg_named_color("chocolate", 0.555F, 0.222F, 0.111F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1077:3: note: in expansion of macro ‘reg_named_color’ 1077 | reg_named_color("brown", 0.65F, 0.32F, 0.17F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1078:3: note: in expansion of macro ‘reg_named_color’ 1078 | reg_named_color("wheat", 0.99F, 0.82F, 0.65F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1079:3: note: in expansion of macro ‘reg_named_color’ 1079 | reg_named_color("violet", 1.F, 0.5F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1088:5: note: in expansion of macro ‘reg_named_color’ 1088 | reg_named_color(name, a / 99.F, a / 99.F, a / 99.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1091:3: note: in expansion of macro ‘reg_named_color’ 1091 | reg_named_color("lightmagenta", 1.F, 0.2F, 0.8F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1105:5: note: in expansion of macro ‘reg_named_color’ 1105 | reg_named_color(name, | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1121:5: note: in expansion of macro ‘reg_named_color’ 1121 | reg_named_color(name, | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1137:5: note: in expansion of macro ‘reg_named_color’ 1137 | reg_named_color(name, | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1155:5: note: in expansion of macro ‘reg_named_color’ 1155 | reg_named_color(name, | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1161:3: note: in expansion of macro ‘reg_named_color’ 1161 | reg_named_color("density", 0.1F, 0.1F, 0.6F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1168:5: note: in expansion of macro ‘reg_named_color’ 1168 | reg_named_color(name, a / 99.F, a / 99.F, a / 99.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1183:5: note: in expansion of macro ‘reg_named_color’ 1183 | reg_named_color(name, | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1189:3: note: in expansion of macro ‘reg_named_color’ 1189 | reg_named_color("paleyellow", 1.F, 1.F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1190:3: note: in expansion of macro ‘reg_named_color’ 1190 | reg_named_color("aquamarine", 0.5F, 1.F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1191:3: note: in expansion of macro ‘reg_named_color’ 1191 | reg_named_color("deepsalmon", 1.F, 0.5F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1192:3: note: in expansion of macro ‘reg_named_color’ 1192 | reg_named_color("palegreen", 0.65F, 0.9F, 0.65F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1193:3: note: in expansion of macro ‘reg_named_color’ 1193 | reg_named_color("deepolive", 0.6F, 0.6F, 0.1F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1194:3: note: in expansion of macro ‘reg_named_color’ 1194 | reg_named_color("deeppurple", 0.6F, 0.1F, 0.6F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1195:3: note: in expansion of macro ‘reg_named_color’ 1195 | reg_named_color("deepteal", 0.1F, 0.6F, 0.6F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1196:3: note: in expansion of macro ‘reg_named_color’ 1196 | reg_named_color("lightblue", 0.75F, 0.75F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1197:3: note: in expansion of macro ‘reg_named_color’ 1197 | reg_named_color("lightorange", 1.F, 0.8F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1198:3: note: in expansion of macro ‘reg_named_color’ 1198 | reg_named_color("palecyan", 0.8F, 1.F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1199:3: note: in expansion of macro ‘reg_named_color’ 1199 | reg_named_color("lightteal", 0.4F, 0.7F, 0.7F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1200:3: note: in expansion of macro ‘reg_named_color’ 1200 | reg_named_color("splitpea", 0.52F, 0.75F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1201:3: note: in expansion of macro ‘reg_named_color’ 1201 | reg_named_color("raspberry", 0.7F, 0.3F, 0.4F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1202:3: note: in expansion of macro ‘reg_named_color’ 1202 | reg_named_color("sand", 0.72F, 0.55F, 0.3F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1203:3: note: in expansion of macro ‘reg_named_color’ 1203 | reg_named_color("smudge", 0.55F, 0.7F, 0.4F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1204:3: note: in expansion of macro ‘reg_named_color’ 1204 | reg_named_color("violetpurple", 0.55F, 0.25F, 0.6F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1205:3: note: in expansion of macro ‘reg_named_color’ 1205 | reg_named_color("dirtyviolet", 0.7F, 0.5F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1208:3: note: in expansion of macro ‘reg_named_color’ 1208 | reg_named_color("_deepsalmon", 1.F, 0.42F, 0.42F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1210:3: note: in expansion of macro ‘reg_named_color’ 1210 | reg_named_color("lightpink", 1.F, 0.75F, 0.87F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1211:3: note: in expansion of macro ‘reg_named_color’ 1211 | reg_named_color("greencyan", 0.25F, 1.F, 0.75F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1212:3: note: in expansion of macro ‘reg_named_color’ 1212 | reg_named_color("limon", 0.75F, 1.F, 0.25F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1213:3: note: in expansion of macro ‘reg_named_color’ 1213 | reg_named_color("skyblue", 0.2F, 0.5F, 0.8F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1214:3: note: in expansion of macro ‘reg_named_color’ 1214 | reg_named_color("bluewhite", 0.85F, 0.85F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1215:3: note: in expansion of macro ‘reg_named_color’ 1215 | reg_named_color("warmpink", 0.85F, 0.2F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1216:3: note: in expansion of macro ‘reg_named_color’ 1216 | reg_named_color("darksalmon", 0.73F, 0.55F, 0.52F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1217:3: note: in expansion of macro ‘reg_named_color’ 1217 | reg_named_color("helium", 0.850980392F, 1.F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1218:3: note: in expansion of macro ‘reg_named_color’ 1218 | reg_named_color("lithium", 0.8F, 0.501960784F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1219:3: note: in expansion of macro ‘reg_named_color’ 1219 | reg_named_color("beryllium", 0.760784314F, 1.F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1220:3: note: in expansion of macro ‘reg_named_color’ 1220 | reg_named_color("boron", 1.F, 0.709803922F, 0.709803922F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1221:3: note: in expansion of macro ‘reg_named_color’ 1221 | reg_named_color("fluorine", 0.701960784F, 1.F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1222:3: note: in expansion of macro ‘reg_named_color’ 1222 | reg_named_color("neon", 0.701960784F, 0.890196078F, 0.960784314F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1223:3: note: in expansion of macro ‘reg_named_color’ 1223 | reg_named_color("sodium", 0.670588235F, 0.360784314F, 0.949019608F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1224:3: note: in expansion of macro ‘reg_named_color’ 1224 | reg_named_color("magnesium", 0.541176471F, 1.F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1225:3: note: in expansion of macro ‘reg_named_color’ 1225 | reg_named_color("aluminum", 0.749019608F, 0.650980392F, 0.650980392F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1226:3: note: in expansion of macro ‘reg_named_color’ 1226 | reg_named_color("silicon", 0.941176471F, 0.784313725F, 0.62745098F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1227:3: note: in expansion of macro ‘reg_named_color’ 1227 | reg_named_color("phosphorus", 1.F, 0.501960784F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1228:3: note: in expansion of macro ‘reg_named_color’ 1228 | reg_named_color("chlorine", 0.121568627F, 0.941176471F, 0.121568627F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1229:3: note: in expansion of macro ‘reg_named_color’ 1229 | reg_named_color("argon", 0.501960784F, 0.819607843F, 0.890196078F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1230:3: note: in expansion of macro ‘reg_named_color’ 1230 | reg_named_color("potassium", 0.560784314F, 0.250980392F, 0.831372549F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1231:3: note: in expansion of macro ‘reg_named_color’ 1231 | reg_named_color("calcium", 0.239215686F, 1.F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1232:3: note: in expansion of macro ‘reg_named_color’ 1232 | reg_named_color("scandium", 0.901960784F, 0.901960784F, 0.901960784F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1233:3: note: in expansion of macro ‘reg_named_color’ 1233 | reg_named_color("titanium", 0.749019608F, 0.760784314F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1234:3: note: in expansion of macro ‘reg_named_color’ 1234 | reg_named_color("vanadium", 0.650980392F, 0.650980392F, 0.670588235F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1235:3: note: in expansion of macro ‘reg_named_color’ 1235 | reg_named_color("chromium", 0.541176471F, 0.6F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1236:3: note: in expansion of macro ‘reg_named_color’ 1236 | reg_named_color("manganese", 0.611764706F, 0.478431373F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1237:3: note: in expansion of macro ‘reg_named_color’ 1237 | reg_named_color("iron", 0.878431373F, 0.4F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1238:3: note: in expansion of macro ‘reg_named_color’ 1238 | reg_named_color("cobalt", 0.941176471F, 0.564705882F, 0.62745098F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1239:3: note: in expansion of macro ‘reg_named_color’ 1239 | reg_named_color("nickel", 0.31372549F, 0.815686275F, 0.31372549F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1240:3: note: in expansion of macro ‘reg_named_color’ 1240 | reg_named_color("copper", 0.784313725F, 0.501960784F, 0.2F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1241:3: note: in expansion of macro ‘reg_named_color’ 1241 | reg_named_color("zinc", 0.490196078F, 0.501960784F, 0.690196078F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1242:3: note: in expansion of macro ‘reg_named_color’ 1242 | reg_named_color("gallium", 0.760784314F, 0.560784314F, 0.560784314F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1243:3: note: in expansion of macro ‘reg_named_color’ 1243 | reg_named_color("germanium", 0.4F, 0.560784314F, 0.560784314F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1244:3: note: in expansion of macro ‘reg_named_color’ 1244 | reg_named_color("arsenic", 0.741176471F, 0.501960784F, 0.890196078F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1245:3: note: in expansion of macro ‘reg_named_color’ 1245 | reg_named_color("selenium", 1.F, 0.631372549F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1246:3: note: in expansion of macro ‘reg_named_color’ 1246 | reg_named_color("bromine", 0.650980392F, 0.160784314F, 0.160784314F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1247:3: note: in expansion of macro ‘reg_named_color’ 1247 | reg_named_color("krypton", 0.360784314F, 0.721568627F, 0.819607843F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1248:3: note: in expansion of macro ‘reg_named_color’ 1248 | reg_named_color("rubidium", 0.439215686F, 0.180392157F, 0.690196078F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1249:3: note: in expansion of macro ‘reg_named_color’ 1249 | reg_named_color("strontium", 0.F, 1.F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1250:3: note: in expansion of macro ‘reg_named_color’ 1250 | reg_named_color("yttrium", 0.580392157F, 1.F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1251:3: note: in expansion of macro ‘reg_named_color’ 1251 | reg_named_color("zirconium", 0.580392157F, 0.878431373F, 0.878431373F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1252:3: note: in expansion of macro ‘reg_named_color’ 1252 | reg_named_color("niobium", 0.450980392F, 0.760784314F, 0.788235294F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1253:3: note: in expansion of macro ‘reg_named_color’ 1253 | reg_named_color("molybdenum", 0.329411765F, 0.709803922F, 0.709803922F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1254:3: note: in expansion of macro ‘reg_named_color’ 1254 | reg_named_color("technetium", 0.231372549F, 0.619607843F, 0.619607843F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1255:3: note: in expansion of macro ‘reg_named_color’ 1255 | reg_named_color("ruthenium", 0.141176471F, 0.560784314F, 0.560784314F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1256:3: note: in expansion of macro ‘reg_named_color’ 1256 | reg_named_color("rhodium", 0.039215686F, 0.490196078F, 0.549019608F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1257:3: note: in expansion of macro ‘reg_named_color’ 1257 | reg_named_color("palladium", 0.F, 0.411764706F, 0.521568627F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1258:3: note: in expansion of macro ‘reg_named_color’ 1258 | reg_named_color("silver", 0.752941176F, 0.752941176F, 0.752941176F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1259:3: note: in expansion of macro ‘reg_named_color’ 1259 | reg_named_color("cadmium", 1.F, 0.850980392F, 0.560784314F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1260:3: note: in expansion of macro ‘reg_named_color’ 1260 | reg_named_color("indium", 0.650980392F, 0.458823529F, 0.450980392F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1261:3: note: in expansion of macro ‘reg_named_color’ 1261 | reg_named_color("tin", 0.4F, 0.501960784F, 0.501960784F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1262:3: note: in expansion of macro ‘reg_named_color’ 1262 | reg_named_color("antimony", 0.619607843F, 0.388235294F, 0.709803922F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1263:3: note: in expansion of macro ‘reg_named_color’ 1263 | reg_named_color("tellurium", 0.831372549F, 0.478431373F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1264:3: note: in expansion of macro ‘reg_named_color’ 1264 | reg_named_color("iodine", 0.580392157F, 0.F, 0.580392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1265:3: note: in expansion of macro ‘reg_named_color’ 1265 | reg_named_color("xenon", 0.258823529F, 0.619607843F, 0.690196078F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1266:3: note: in expansion of macro ‘reg_named_color’ 1266 | reg_named_color("cesium", 0.341176471F, 0.090196078F, 0.560784314F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1267:3: note: in expansion of macro ‘reg_named_color’ 1267 | reg_named_color("barium", 0.F, 0.788235294F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1268:3: note: in expansion of macro ‘reg_named_color’ 1268 | reg_named_color("lanthanum", 0.439215686F, 0.831372549F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1269:3: note: in expansion of macro ‘reg_named_color’ 1269 | reg_named_color("cerium", 1.F, 1.F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1270:3: note: in expansion of macro ‘reg_named_color’ 1270 | reg_named_color("praseodymium", 0.850980392F, 1.F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1271:3: note: in expansion of macro ‘reg_named_color’ 1271 | reg_named_color("neodymium", 0.780392157F, 1.F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1272:3: note: in expansion of macro ‘reg_named_color’ 1272 | reg_named_color("promethium", 0.639215686F, 1.F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1273:3: note: in expansion of macro ‘reg_named_color’ 1273 | reg_named_color("samarium", 0.560784314F, 1.F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1274:3: note: in expansion of macro ‘reg_named_color’ 1274 | reg_named_color("europium", 0.380392157F, 1.F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1275:3: note: in expansion of macro ‘reg_named_color’ 1275 | reg_named_color("gadolinium", 0.270588235F, 1.F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1276:3: note: in expansion of macro ‘reg_named_color’ 1276 | reg_named_color("terbium", 0.188235294F, 1.F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1277:3: note: in expansion of macro ‘reg_named_color’ 1277 | reg_named_color("dysprosium", 0.121568627F, 1.F, 0.780392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1278:3: note: in expansion of macro ‘reg_named_color’ 1278 | reg_named_color("holmium", 0.F, 1.F, 0.611764706F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1279:3: note: in expansion of macro ‘reg_named_color’ 1279 | reg_named_color("erbium", 0.F, 0.901960784F, 0.458823529F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1280:3: note: in expansion of macro ‘reg_named_color’ 1280 | reg_named_color("thulium", 0.F, 0.831372549F, 0.321568627F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1281:3: note: in expansion of macro ‘reg_named_color’ 1281 | reg_named_color("ytterbium", 0.F, 0.749019608F, 0.219607843F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1282:3: note: in expansion of macro ‘reg_named_color’ 1282 | reg_named_color("lutetium", 0.F, 0.670588235F, 0.141176471F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1283:3: note: in expansion of macro ‘reg_named_color’ 1283 | reg_named_color("hafnium", 0.301960784F, 0.760784314F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1284:3: note: in expansion of macro ‘reg_named_color’ 1284 | reg_named_color("tantalum", 0.301960784F, 0.650980392F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1285:3: note: in expansion of macro ‘reg_named_color’ 1285 | reg_named_color("tungsten", 0.129411765F, 0.580392157F, 0.839215686F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1286:3: note: in expansion of macro ‘reg_named_color’ 1286 | reg_named_color("rhenium", 0.149019608F, 0.490196078F, 0.670588235F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1287:3: note: in expansion of macro ‘reg_named_color’ 1287 | reg_named_color("osmium", 0.149019608F, 0.4F, 0.588235294F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1288:3: note: in expansion of macro ‘reg_named_color’ 1288 | reg_named_color("iridium", 0.090196078F, 0.329411765F, 0.529411765F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1289:3: note: in expansion of macro ‘reg_named_color’ 1289 | reg_named_color("platinum", 0.815686275F, 0.815686275F, 0.878431373F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1290:3: note: in expansion of macro ‘reg_named_color’ 1290 | reg_named_color("gold", 1.F, 0.819607843F, 0.137254902F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1291:3: note: in expansion of macro ‘reg_named_color’ 1291 | reg_named_color("mercury", 0.721568627F, 0.721568627F, 0.815686275F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1292:3: note: in expansion of macro ‘reg_named_color’ 1292 | reg_named_color("thallium", 0.650980392F, 0.329411765F, 0.301960784F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1293:3: note: in expansion of macro ‘reg_named_color’ 1293 | reg_named_color("lead", 0.341176471F, 0.349019608F, 0.380392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1294:3: note: in expansion of macro ‘reg_named_color’ 1294 | reg_named_color("bismuth", 0.619607843F, 0.309803922F, 0.709803922F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1295:3: note: in expansion of macro ‘reg_named_color’ 1295 | reg_named_color("polonium", 0.670588235F, 0.360784314F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1296:3: note: in expansion of macro ‘reg_named_color’ 1296 | reg_named_color("astatine", 0.458823529F, 0.309803922F, 0.270588235F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1297:3: note: in expansion of macro ‘reg_named_color’ 1297 | reg_named_color("radon", 0.258823529F, 0.509803922F, 0.588235294F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1298:3: note: in expansion of macro ‘reg_named_color’ 1298 | reg_named_color("francium", 0.258823529F, 0.F, 0.4F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1299:3: note: in expansion of macro ‘reg_named_color’ 1299 | reg_named_color("radium", 0.F, 0.490196078F, 0.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1300:3: note: in expansion of macro ‘reg_named_color’ 1300 | reg_named_color("actinium", 0.439215686F, 0.670588235F, 0.980392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1301:3: note: in expansion of macro ‘reg_named_color’ 1301 | reg_named_color("thorium", 0.F, 0.729411765F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1302:3: note: in expansion of macro ‘reg_named_color’ 1302 | reg_named_color("protactinium", 0.F, 0.631372549F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1303:3: note: in expansion of macro ‘reg_named_color’ 1303 | reg_named_color("uranium", 0.F, 0.560784314F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1304:3: note: in expansion of macro ‘reg_named_color’ 1304 | reg_named_color("neptunium", 0.F, 0.501960784F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1305:3: note: in expansion of macro ‘reg_named_color’ 1305 | reg_named_color("plutonium", 0.F, 0.419607843F, 1.F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1306:3: note: in expansion of macro ‘reg_named_color’ 1306 | reg_named_color("americium", 0.329411765F, 0.360784314F, 0.949019608F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1307:3: note: in expansion of macro ‘reg_named_color’ 1307 | reg_named_color("curium", 0.470588235F, 0.360784314F, 0.890196078F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1308:3: note: in expansion of macro ‘reg_named_color’ 1308 | reg_named_color("berkelium", 0.541176471F, 0.309803922F, 0.890196078F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1309:3: note: in expansion of macro ‘reg_named_color’ 1309 | reg_named_color("californium", 0.631372549F, 0.211764706F, 0.831372549F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1310:3: note: in expansion of macro ‘reg_named_color’ 1310 | reg_named_color("einsteinium", 0.701960784F, 0.121568627F, 0.831372549F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1311:3: note: in expansion of macro ‘reg_named_color’ 1311 | reg_named_color("fermium", 0.701960784F, 0.121568627F, 0.729411765F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1312:3: note: in expansion of macro ‘reg_named_color’ 1312 | reg_named_color("mendelevium", 0.701960784F, 0.050980392F, 0.650980392F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1313:3: note: in expansion of macro ‘reg_named_color’ 1313 | reg_named_color("nobelium", 0.741176471F, 0.050980392F, 0.529411765F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1314:3: note: in expansion of macro ‘reg_named_color’ 1314 | reg_named_color("lawrencium", 0.780392157F, 0.F, 0.4F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1315:3: note: in expansion of macro ‘reg_named_color’ 1315 | reg_named_color("rutherfordium", 0.8F, 0.F, 0.349019608F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1316:3: note: in expansion of macro ‘reg_named_color’ 1316 | reg_named_color("dubnium", 0.819607843F, 0.F, 0.309803922F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1317:3: note: in expansion of macro ‘reg_named_color’ 1317 | reg_named_color("seaborgium", 0.850980392F, 0.F, 0.270588235F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1318:3: note: in expansion of macro ‘reg_named_color’ 1318 | reg_named_color("bohrium", 0.878431373F, 0.F, 0.219607843F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1319:3: note: in expansion of macro ‘reg_named_color’ 1319 | reg_named_color("hassium", 0.901960784F, 0.F, 0.180392157F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1320:3: note: in expansion of macro ‘reg_named_color’ 1320 | reg_named_color("meitnerium", 0.921568627F, 0.F, 0.149019608F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1321:3: note: in expansion of macro ‘reg_named_color’ 1321 | reg_named_color("deuterium", 0.9F, 0.9F, 0.9F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1322:3: note: in expansion of macro ‘reg_named_color’ 1322 | reg_named_color("lonepair", 0.5F, 0.5F, 0.5F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp:1023:25: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, int>::mapped_type’ {aka ‘int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1023 | assert(I->Idx[name] == Color.size() - 1); \ layer1/Color.cpp:1323:3: note: in expansion of macro ‘reg_named_color’ 1323 | reg_named_color("pseudoatom", 0.9F, 0.9F, 0.9F); | ^~~~~~~~~~~~~~~ layer1/Color.cpp: In function ‘void ColorUpdateFromLut(PyMOLGlobals*, int)’: layer1/Color.cpp:1695:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1695 | for(i = 0; i < I->Color.size(); i++) { | ~~^~~~~~~~~~~~~~~~~ layer1/Color.cpp:1699:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1699 | if(index < I->Color.size()) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer1/Color.cpp: In function ‘const float* ColorGet(PyMOLGlobals*, int)’: layer1/Color.cpp:1808:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1808 | if((index >= 0) && (index < I->Color.size())) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer1/Color.cpp: In function ‘const float* ColorGetRaw(PyMOLGlobals*, int)’: layer1/Color.cpp:1835:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1835 | if((index >= 0) && (index < I->Color.size())) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer1/Color.cpp: In function ‘int ColorGetEncoded(PyMOLGlobals*, int, float*)’: layer1/Color.cpp:1853:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1853 | if((index >= 0) && (index < I->Color.size())) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitiveName(PyMOLGlobals*, const Sequence&, const char*) [with Sequence = std::vector]’: layer1/Color.cpp:304:35: required from here layer1/Color.cpp:245:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 245 | for (int a = 0; a < seq.size(); ++a) { | ~~^~~~~~~~~~~~ layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitiveName(PyMOLGlobals*, const Sequence&, const char*) [with Sequence = std::vector]’: layer1/Color.cpp:626:38: required from here layer1/Color.cpp:245:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitivePrefix(PyMOLGlobals*, const Sequence&, const char*, int&) [with Sequence = std::vector]’: layer1/Color.cpp:741:42: required from here layer1/Color.cpp:275:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 275 | for (int a = 0; a < seq.size(); ++a) { | ~~^~~~~~~~~~~~ layer1/Color.cpp: In instantiation of ‘int findByCaseInsensitivePrefix(PyMOLGlobals*, const Sequence&, const char*, int&) [with Sequence = std::vector]’: layer1/Color.cpp:743:54: required from here layer1/Color.cpp:275:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/ScenePicking.cpp -o build/temp.linux-x86_64-3.9/layer1/ScenePicking.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer1/ScenePicking.cpp: In function ‘SceneRenderPicking(PyMOLGlobals*, int, int*, int, Picking*, int, int, Multipick*, SceneUnitContext*, unsigned int)’: layer1/ScenePicking.cpp:249:7: warning: ‘previous.src.index’ may be used uninitialized in this function [-Wmaybe-uninitialized] 249 | if (pik->src.index != previous.src.index || | ^~ layer1/ScenePicking.cpp:238:11: note: ‘previous.src.index’ was declared here 238 | Picking previous; | ^~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SceneRay.cpp -o build/temp.linux-x86_64-3.9/layer1/SceneRay.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SceneRender.cpp -o build/temp.linux-x86_64-3.9/layer1/SceneRender.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/ScrollBar.cpp -o build/temp.linux-x86_64-3.9/layer1/ScrollBar.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Control.cpp -o build/temp.linux-x86_64-3.9/layer1/Control.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Seq.cpp -o build/temp.linux-x86_64-3.9/layer1/Seq.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from layer0/vla.h:7, from layer1/Symmetry.h:26, from layer1/PyMOLObject.h:27, from layer1/Scene.h:22, from layer1/Control.cpp:25: layer1/Control.cpp: In function ‘void ControlFree(PyMOLGlobals*)’: layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CControl’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}} layer1/Control.cpp:410:3: note: in expansion of macro ‘DeleteP’ 410 | DeleteP(G->Control); | ^~~~~~~ layer1/Seq.cpp: In function ‘int SeqFindRowCol(PyMOLGlobals*, int, int, int*, int*, int)’: layer1/Seq.cpp:61:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 61 | if((char_num >= 0) && (char_num < row->ext_len) && (row->char2col)) { | ~~~~~~~~~^~~~~~~~~~~~~~ layer1/Seq.cpp: In member function ‘virtual void CSeq::reshape(int, int)’: layer1/Seq.cpp:114:28: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 114 | if(I->Row[a].ext_len > I->Size) layer1/Seq.cpp: In member function ‘virtual void CSeq::draw(CGO*)’: layer1/Seq.cpp:392:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 392 | if(max_len < row->ext_len) | ~~~~~~~~^~~~~~~~~~~~~~ In file included from layer0/vla.h:7, from layer1/Symmetry.h:26, from layer1/PyMOLObject.h:27, from layer1/Seq.h:21, from layer1/Seq.cpp:22: layer1/Seq.cpp: In function ‘void SeqFree(PyMOLGlobals*)’: layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CSeq’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}} layer1/Seq.cpp:731:3: note: in expansion of macro ‘DeleteP’ 731 | DeleteP(G->Seq); | ^~~~~~~ layer1/Seq.cpp: At global scope: layer1/Seq.cpp:717:13: warning: ‘void SeqPurgeRowVLA(PyMOLGlobals*)’ defined but not used [-Wunused-function] 717 | static void SeqPurgeRowVLA(PyMOLGlobals * G) | ^~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Extrude.cpp -o build/temp.linux-x86_64-3.9/layer1/Extrude.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Setting.cpp -o build/temp.linux-x86_64-3.9/layer1/Setting.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer1/Setting.cpp: In function ‘void SettingGenerateSideEffects(PyMOLGlobals*, int, const char*, int, int)’: layer1/Setting.cpp:2070:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2070 | if (SettingGetGlobal_b(G, cSetting_precomputed_lighting)) | ^~ layer1/Setting.cpp:2072:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2072 | SceneInvalidate(G); | ^~~~~~~~~~~~~~~ layer1/Extrude.cpp: In function ‘ExtrudeComputeTangents(CExtrude*)’: layer1/Extrude.cpp:741:13: warning: ‘*_64’ may be used uninitialized [-Wmaybe-uninitialized] 741 | *(v1++) = *(v++); /* first segment */ | ^~~~~~ layer1/Extrude.cpp:742:13: warning: ‘MEM[(float *)_64 + 4B]’ may be used uninitialized [-Wmaybe-uninitialized] 742 | *(v1++) = *(v++); | ^~~~~~ layer1/Extrude.cpp:743:13: warning: ‘MEM[(float *)_64 + 8B]’ may be used uninitialized [-Wmaybe-uninitialized] 743 | *(v1++) = *(v++); | ^~~~~~ layer1/Extrude.cpp: In function ‘ExtrudeCGOSurfaceTube(CExtrude const*, CGO*, cCylCap, float const*, bool, int)’: layer1/Extrude.cpp:948:46: warning: ‘stop’ may be used uninitialized in this function [-Wmaybe-uninitialized] 948 | if(color_override && (b > start) && (b < stop)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ layer1/Extrude.cpp:948:37: warning: ‘start’ may be used uninitialized in this function [-Wmaybe-uninitialized] 948 | if(color_override && (b > start) && (b < stop)) | ~~~^~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Font.cpp -o build/temp.linux-x86_64-3.9/layer1/Font.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUT.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUT.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUT8x13.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUT8x13.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/FontGLUT9x15.cpp -o build/temp.linux-x86_64-3.9/layer1/FontGLUT9x15.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Wizard.cpp -o build/temp.linux-x86_64-3.9/layer1/Wizard.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer1/Wizard.cpp: In member function ‘virtual int CWizard::release(int, int, int, int)’: layer1/Wizard.cpp:571:18: warning: unused variable ‘wiz’ [-Wunused-variable] 571 | if (auto wiz = WizardGet(G)) { | ^~~ layer1/Wizard.cpp: In member function ‘virtual void CWizard::draw(CGO*)’: layer1/Wizard.cpp:727:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 727 | else | ^~~~ layer1/Wizard.cpp:729:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 729 | drawTopEdge(); | ^~~~~~~~~~~ In file included from layer1/Wizard.cpp:27: layer1/Wizard.cpp: In function ‘void WizardFree(PyMOLGlobals*)’: layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CWizard’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}} layer1/Wizard.cpp:845:3: note: in expansion of macro ‘DeleteP’ 845 | DeleteP(G->Wizard); | ^~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/AssemblyHelpers.cpp -o build/temp.linux-x86_64-3.9/layer2/AssemblyHelpers.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/AtomInfo.cpp -o build/temp.linux-x86_64-3.9/layer2/AtomInfo.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/AtomInfo.cpp: In function ‘bool AtomResiFromResv(char*, size_t, int, char)’: layer2/AtomInfo.cpp:817:56: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 817 | return snprintf(resi, size, "%d%c", resv, inscode) < size; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ layer2/AtomInfo.cpp:818:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 818 | return snprintf(resi, size, "%d", resv) < size; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/AtomInfoHistory.cpp -o build/temp.linux-x86_64-3.9/layer2/AtomInfoHistory.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Shaker.cpp -o build/temp.linux-x86_64-3.9/layer1/Shaker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/BondTypeHistory.cpp -o build/temp.linux-x86_64-3.9/layer2/BondTypeHistory.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SymOp.cpp -o build/temp.linux-x86_64-3.9/layer1/SymOp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/CifFile.cpp -o build/temp.linux-x86_64-3.9/layer2/CifFile.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer1/SymOp.cpp: In member function ‘pymol::SymOp::to_string[abi:cxx11]() const’: layer1/SymOp.cpp:37:32: warning: ‘%d’ directive output may be truncated writing between 1 and 4 bytes into a region of size between 0 and 5 [-Wformat-truncation=] 37 | std::snprintf(code, 8, "%u_%d%d%d", index + 1, x + 5, y + 5, z + 5); | ^~ layer1/SymOp.cpp:37:26: note: directive argument in the range [-123, 132] 37 | std::snprintf(code, 8, "%u_%d%d%d", index + 1, x + 5, y + 5, z + 5); | ^~~~~~~~~~~ layer1/SymOp.cpp:37:26: note: directive argument in the range [-123, 132] In file included from /usr/include/stdio.h:900, from /usr/include/c++/11/cstdio:42, from /usr/include/c++/11/ext/string_conversions.h:43, from /usr/include/c++/11/bits/basic_string.h:6608, from /usr/include/c++/11/string:55, from layer1/SymOp.h:9, from layer1/SymOp.cpp:7: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 6 and 17 bytes into a destination of size 8 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SymOpPConv.cpp -o build/temp.linux-x86_64-3.9/layer1/SymOpPConv.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/SymOpTools.cpp -o build/temp.linux-x86_64-3.9/layer1/SymOpTools.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Symmetry.cpp -o build/temp.linux-x86_64-3.9/layer1/Symmetry.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/CifMoleculeReader.cpp -o build/temp.linux-x86_64-3.9/layer2/CifMoleculeReader.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/Text.cpp -o build/temp.linux-x86_64-3.9/layer1/Text.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/CifMoleculeReader.cpp: In member function ‘void seqvec_t::set(int, const char*)’: layer2/CifMoleculeReader.cpp:108:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 108 | if (i > size()) | ~~^~~~~~~~ layer2/CifMoleculeReader.cpp: In member function ‘const char* seqvec_t::get(int) const’: layer2/CifMoleculeReader.cpp:114:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | if (i < 1 || i > size()) | ~~^~~~~~~~ layer2/CifMoleculeReader.cpp: In function ‘CoordSet** read_pdbx_struct_assembly(PyMOLGlobals*, const pymol::cif_data*, const AtomInfoType*, const CoordSet*, const char*)’: layer2/CifMoleculeReader.cpp:827:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 827 | while (j < c_src_len * c_it->size()) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:519, from layer0/os_std.h:25, from layer2/CifMoleculeReader.cpp:16: In function ‘strncpy’, inlined from ‘bond_dict_t::make_key(char const*)’ at layer2/CifBondDict.h:93:12, inlined from ‘bond_dict_t::get(PyMOLGlobals*, char const*, bool)’ at layer2/CifMoleculeReader.cpp:2320:22: /usr/include/bits/string_fortified.h:95:34: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 95 | return __builtin___strncpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 96 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/CoordSet.cpp -o build/temp.linux-x86_64-3.9/layer2/CoordSet.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer3/Executive.h:27, from layer2/CoordSet.cpp:54: layer2/CoordSet.cpp: In member function ‘int CoordSet::atmToIdx(int) const’: layer2/CoordSet.cpp:134:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 134 | assert(atm < AtmToIdx.size()); | ~~~~^~~~~~~~~~~~~~~~~ layer2/CoordSet.cpp: In member function ‘void CoordSet::updateNonDiscreteAtmToIdx(unsigned int)’: layer2/CoordSet.cpp:140:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 140 | assert(!Obj || natom == Obj->NAtom); | ~~~~~~^~~~~~~~~~~~~ layer2/CoordSet.cpp:145:16: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘unsigned int’ [-Wsign-compare] 145 | assert(atm < natom); | ~~~~^~~~~~~ layer2/CoordSet.cpp: In member function ‘int CoordSet::extendIndices(int)’: layer2/CoordSet.cpp:1572:21: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 1572 | assert(NAtIndex <= nAtom); | ~~~~~~~~~^~~~~~~~ layer2/CoordSet.cpp:1573:18: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 1573 | if (NAtIndex < nAtom) { | ~~~~~~~~~^~~~~~~ layer2/CoordSet.cpp: In function ‘void CoordSetAtomToPDBStrVLA(PyMOLGlobals*, char**, int*, const AtomInfoType*, const float*, int, const PDBInfoRec*, const double*)’: layer2/CoordSet.cpp:1014:14: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying 6 bytes from a string of the same length [-Wstringop-truncation] 1014 | strncpy(anisoline, "ANISOU", 6); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/DistSet.cpp -o build/temp.linux-x86_64-3.9/layer2/DistSet.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/DistSet.cpp: In function ‘int DistSetGetLabelVertex(DistSet*, int, float*)’: layer2/DistSet.cpp:43:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | if (at >= 0 && at < I->LabCoord.size()) { | ~~~^~~~~~~~~~~~~~~~~~~~ layer2/DistSet.cpp: In member function ‘pymol::Result > DistSet::getLabelOffset(int) const’: layer2/DistSet.cpp:59:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 59 | if (atm < 0 || atm >= this->LabPos.size()) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/GadgetSet.cpp -o build/temp.linux-x86_64-3.9/layer2/GadgetSet.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/TypeFace.cpp -o build/temp.linux-x86_64-3.9/layer1/TypeFace.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer1/View.cpp -o build/temp.linux-x86_64-3.9/layer1/View.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/HydrogenAdder.cpp -o build/temp.linux-x86_64-3.9/layer2/HydrogenAdder.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectVolume.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectVolume.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/HydrogenAdder.cpp: In function ‘int ObjectMoleculeAddSeleHydrogensRefactored(ObjectMolecule*, int, int)’: layer2/HydrogenAdder.cpp:283:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 283 | for (unsigned atm = 0; atm < n_atom_old; atm++) { | ~~~~^~~~~~~~~~~~ layer2/HydrogenAdder.cpp:301:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 301 | for (unsigned atm = 0; atm < n_atom_old; ++atm) { | ~~~~^~~~~~~~~~~~ layer2/HydrogenAdder.cpp:349:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 349 | for (unsigned idx = 0; idx < cs->NIndex; ++idx) { | ~~~~^~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/MmodTyping.cpp -o build/temp.linux-x86_64-3.9/layer2/MmodTyping.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectVolume.cpp: In function ‘PyObject* ObjectVolumeAllStatesAsPyList(ObjectVolume*)’: layer2/ObjectVolume.cpp:127:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 127 | for(int a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectVolume.cpp: In function ‘int ObjectVolumeAllStatesFromPyList(ObjectVolume*, PyObject*)’: layer2/ObjectVolume.cpp:248:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 248 | for(int a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectVolume.cpp: In function ‘int ObjectVolumeInvalidateMapName(ObjectVolume*, const char*, const char*)’: layer2/ObjectVolume.cpp:313:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 313 | for(int a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::invalidate(cRep_t, cRepInv_t, int)’: layer2/ObjectVolume.cpp:341:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 341 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::update()’: layer2/ObjectVolume.cpp:402:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 402 | for(int a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectVolume.cpp:440:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 440 | for (i = 0; i < vs->Ramp.size(); i += 5) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectVolume.cpp: In member function ‘virtual void ObjectVolume::render(RenderInfo*)’: layer2/ObjectVolume.cpp:759:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 759 | for(a = 0; a < I->State.size(); ++a) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectVolume.cpp: In function ‘ObjectVolume* ObjectVolumeFromXtalSym(PyMOLGlobals*, ObjectVolume*, ObjectMap*, CSymmetry*, int, int, float*, float*, float, int, float, float*, int)’: layer2/ObjectVolume.cpp:1131:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1131 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectVolume.cpp: In function ‘void ObjectVolumeRecomputeExtent(ObjectVolume*)’: layer2/ObjectVolume.cpp:1232:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1232 | for(int a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/MmtfMoleculeReader.cpp -o build/temp.linux-x86_64-3.9/layer2/MmtfMoleculeReader.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Isosurf.h:24, from layer2/ObjectMap.h:25, from layer2/ObjectVolume.h:20, from layer2/ObjectVolume.cpp:29: layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = unsigned char; SizeTs = {int, int, int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = unsigned char; SizeTs = {int, int, int}]’ layer2/ObjectVolume.cpp:534:44: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 100 | assert(sizeof...(pos) <= n_dim()); | ~~~~~~~~~~~~~~~^~~~~~~~~~ layer2/ObjectVolume.cpp: At global scope: layer2/ObjectVolume.cpp:657:15: warning: ‘size_t createPreintegrationTexture(PyMOLGlobals*, const float*, int)’ defined but not used [-Wunused-function] 657 | static size_t createPreintegrationTexture(PyMOLGlobals * G, const float *Table, const int count) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ layer2/MmtfMoleculeReader.cpp: In function ‘ObjectMolecule* ObjectMoleculeReadMmtfStr(PyMOLGlobals*, ObjectMolecule*, const char*, int, int, int, int, int, int)’: layer2/MmtfMoleculeReader.cpp:223:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 223 | for (int l = 0, offset = atomIndex; l < group->bondAtomListCount / 2; ++l) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/cassert:44, from layer0/vla.h:10, from layer1/Symmetry.h:26, from layer1/PyMOLObject.h:27, from layer2/ObjectMolecule.h:24, from layer2/MmtfMoleculeReader.cpp:9: layer2/MmtfMoleculeReader.cpp:276:34: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 276 | assert(cset->IdxToAtm.size() == cset->getNIndex()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ layer2/MmtfMoleculeReader.cpp:287:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 287 | for (int l = 0; l < container->bondAtomListCount / 2; ++l) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer2/ObjectVolume.cpp: In function ‘ObjectVolumeStateGetMapState(ObjectVolumeState*)’: layer2/ObjectVolume.cpp:74:33: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] 74 | "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName | ^~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer2/ObjectVolume.cpp:20: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 46 and 301 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/Mol2Typing.cpp -o build/temp.linux-x86_64-3.9/layer2/Mol2Typing.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepAngle.cpp -o build/temp.linux-x86_64-3.9/layer2/RepAngle.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/MolV3000.cpp -o build/temp.linux-x86_64-3.9/layer2/MolV3000.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectAlignment.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectAlignment.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepCartoon.cpp -o build/temp.linux-x86_64-3.9/layer2/RepCartoon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/RepCartoon.cpp: In function ‘Rep* RepCartoonNew(CoordSet*, int)’: layer2/RepCartoon.cpp:3731:11: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class CCInOut’; use assignment or value-initialization instead [-Wclass-memaccess] 3731 | memset(car, 0, sizeof(*car) * nAtIndex); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer2/RepCartoon.cpp:44:7: note: ‘class CCInOut’ declared here 44 | class CCInOut { | ^~~~~~~ In file included from layer0/Map.h:24, from layer1/Basis.h:20, from layer1/Ray.h:24, from layer1/PyMOLObject.h:24, from layer2/ObjectAlignment.h:22, from layer2/ObjectAlignment.cpp:27: layer2/ObjectAlignment.cpp: In member function ‘ObjectAlignment::update()’: layer0/Vector.h:322:10: warning: ‘MEM[(float *)&gvert + 8B]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 322 | dst[2] = src[2]; | ~~~~~~~^~~~~~ layer2/ObjectAlignment.cpp:926:39: note: ‘MEM[(float *)&gvert + 8B]’ was declared here 926 | float mean[3], vert[3], gvert[3]; | ^~~~~ In file included from layer0/Map.h:24, from layer1/Basis.h:20, from layer1/Ray.h:24, from layer1/PyMOLObject.h:24, from layer2/ObjectAlignment.h:22, from layer2/ObjectAlignment.cpp:27: layer0/Vector.h:321:10: warning: ‘MEM[(float *)&gvert + 4B]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 321 | dst[1] = src[1]; | ~~~~~~~^~~~~~ layer2/ObjectAlignment.cpp:926:39: note: ‘MEM[(float *)&gvert + 4B]’ was declared here 926 | float mean[3], vert[3], gvert[3]; | ^~~~~ In file included from layer0/Map.h:24, from layer1/Basis.h:20, from layer1/Ray.h:24, from layer1/PyMOLObject.h:24, from layer2/ObjectAlignment.h:22, from layer2/ObjectAlignment.cpp:27: layer0/Vector.h:320:10: warning: ‘MEM[(float *)&gvert]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 320 | dst[0] = src[0]; | ~~~~~~~^~~~~~ layer2/ObjectAlignment.cpp:926:39: note: ‘MEM[(float *)&gvert]’ was declared here 926 | float mean[3], vert[3], gvert[3]; | ^~~~~ In file included from layer2/CoordSet.h:24, from layer2/RepCartoon.h:21, from layer2/RepCartoon.cpp:27: layer2/RepCartoon.cpp: In function ‘ring_connector_visible(PyMOLGlobals*, AtomInfoType const*, AtomInfoType const*, bool)’: layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized] 436 | int i = *out; | ^~~~ In file included from layer2/ObjectMolecule.h:25, from layer2/CoordSet.h:25, from layer2/RepCartoon.h:21, from layer2/RepCartoon.cpp:27: layer2/AtomInfo.h:505:5: note: ‘out’ was declared here 505 | V out; | ^~~ In file included from layer2/CoordSet.h:24, from layer2/RepCartoon.h:21, from layer2/RepCartoon.cpp:27: layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized] 436 | int i = *out; | ^~~~ In file included from layer2/ObjectMolecule.h:25, from layer2/CoordSet.h:25, from layer2/RepCartoon.h:21, from layer2/RepCartoon.cpp:27: layer2/AtomInfo.h:505:5: note: ‘out’ was declared here 505 | V out; | ^~~ layer2/RepCartoon.cpp: In function ‘do_ring(PyMOLGlobals*, nuc_acid_data*, int, int*, ObjectMolecule*, CoordSet*, float, CGO*, int, float, int, int, int, float, float, int*, float*, float)’: layer2/RepCartoon.cpp:1007:65: warning: ‘i’ may be used uninitialized in this function [-Wmaybe-uninitialized] 1007 | float ladder_alpha = 1.0f - AtomSettingGetWD(G, ai_i[i], cSetting_cartoon_transparency, 1.0f - alpha); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectCGO.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectCGO.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from layer1/Symmetry.h:26, from layer2/CoordSet.h:22, from layer2/RepCartoon.h:21, from layer2/RepCartoon.cpp:27: layer2/RepCartoon.cpp: In function ‘GenerateRepCartoonCGO(CoordSet*, ObjectMolecule*, nuc_acid_data*, short, float*, int, float*, float*, float*, CCInOut const*, int*, int*, int*, float*, float)’: layer0/vla.h:118:60: warning: ‘atom_index2’ may be used uninitialized in this function [-Wmaybe-uninitialized] 118 | template T* operator+(S i) { return m_vla + i; } | ^ layer2/RepCartoon.cpp:1593:20: note: ‘atom_index2’ was declared here 1593 | int atom_index1, atom_index2, *s, | ^~~~~~~~~~~ layer2/ObjectCGO.cpp: In function ‘PyObject* ObjectCGOAllStatesAsPyList(ObjectCGO*)’: layer2/ObjectCGO.cpp:53:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 53 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectCGO.cpp: In function ‘int ObjectCGOAllStatesFromPyList(ObjectCGO*, PyObject*, int)’: layer2/ObjectCGO.cpp:104:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 104 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectCGO.cpp: In member function ‘virtual void ObjectCGO::invalidate(cRep_t, cRepInv_t, int)’: layer2/ObjectCGO.cpp:205:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 205 | if((state >= 0) && (state < I->State.size())) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectCGO.cpp: In member function ‘virtual void ObjectCGO::render(RenderInfo*)’: layer2/ObjectCGO.cpp:488:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 488 | if (!ray) | ^~ layer2/ObjectCGO.cpp:490:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 490 | ObjectCGORenderState(G, pass, ray, I, info, sobj, color, ramp, use_shader, cgo_lighting); | ^~~~~~~~~~~~~~~~~~~~ In file included from layer2/ObjectCGO.cpp:24: layer2/ObjectCGO.h: In copy constructor ‘ObjectCGOState::ObjectCGOState(const ObjectCGOState&)’: layer2/ObjectCGO.h:28:17: warning: ‘ObjectCGOState::G’ will be initialized after [-Wreorder] 28 | PyMOLGlobals* G; | ^ layer2/ObjectCGO.h:27:25: warning: ‘pymol::cache_ptr ObjectCGOState::renderCGO’ [-Wreorder] 27 | pymol::cache_ptr renderCGO; | ^~~~~~~~~ layer2/ObjectCGO.cpp:517:1: warning: when initialized here [-Wreorder] 517 | ObjectCGOState::ObjectCGOState(const ObjectCGOState& other) | ^~~~~~~~~~~~~~ In file included from layer2/ObjectCGO.cpp:24: layer2/ObjectCGO.h:29:58: warning: ‘ObjectCGOState::hasOpaque’ will be initialized after [-Wreorder] 29 | bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque; | ^~~~~~~~~ layer2/ObjectCGO.h:29:44: warning: ‘bool ObjectCGOState::cgo_lighting’ [-Wreorder] 29 | bool renderWithShaders, hasTransparency, cgo_lighting, hasOpaque; | ^~~~~~~~~~~~ layer2/ObjectCGO.cpp:517:1: warning: when initialized here [-Wreorder] 517 | ObjectCGOState::ObjectCGOState(const ObjectCGOState& other) | ^~~~~~~~~~~~~~ layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGOFromCGO(PyMOLGlobals*, ObjectCGO*, CGO*, int)’: layer2/ObjectCGO.cpp:602:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 602 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGODefine(PyMOLGlobals*, ObjectCGO*, PyObject*, int)’: layer2/ObjectCGO.cpp:667:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 667 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectCGO.cpp: In function ‘ObjectCGO* ObjectCGOFromFloatArray(PyMOLGlobals*, ObjectCGO*, float*, int, int, int)’: layer2/ObjectCGO.cpp:725:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 725 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectCallback.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectCallback.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepCylBond.cpp -o build/temp.linux-x86_64-3.9/layer2/RepCylBond.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectDist.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectDist.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepDihedral.cpp -o build/temp.linux-x86_64-3.9/layer2/RepDihedral.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectDist.cpp: In function ‘int ObjectDistMoveWithObject(ObjectDist*, ObjectMolecule*)’: layer2/ObjectDist.cpp:111:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 111 | for (int i=0; iDSet.size(); i++) { | ~^~~~~~~~~~~~~~~ layer2/ObjectDist.cpp: In function ‘void ObjectDistUpdateExtents(ObjectDist*)’: layer2/ObjectDist.cpp:136:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 136 | for(int a = 0; a < I->DSet.size(); a++) { | ~~^~~~~~~~~~~~~~~~ layer2/ObjectDist.cpp: In function ‘PyObject* ObjectDistDSetAsPyList(ObjectDist*)’: layer2/ObjectDist.cpp:148:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | for(int a = 0; a < I->DSet.size(); a++) { | ~~^~~~~~~~~~~~~~~~ layer2/ObjectDist.cpp: In function ‘int ObjectDistDSetFromPyList(ObjectDist*, PyObject*)’: layer2/ObjectDist.cpp:165:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 165 | for(int a = 0; a < I->DSet.size(); a++) { | ~~^~~~~~~~~~~~~~~~ layer2/ObjectDist.cpp: In member function ‘virtual void ObjectDist::update()’: layer2/ObjectDist.cpp:241:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 241 | for(int a = 0; a < I->DSet.size(); a++) | ~~^~~~~~~~~~~~~~~~ layer2/ObjectDist.cpp: In function ‘void ObjectDistInvalidateRep(ObjectDist*, cRep_t)’: layer2/ObjectDist.cpp:257:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for(a = 0; a < I->DSet.size(); a++) | ~~^~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectGadget.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectGadget.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepDistDash.cpp -o build/temp.linux-x86_64-3.9/layer2/RepDistDash.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectGadgetRamp.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectGadgetRamp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepDistLabel.cpp -o build/temp.linux-x86_64-3.9/layer2/RepDistLabel.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectGroup.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectGroup.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepDot.cpp -o build/temp.linux-x86_64-3.9/layer2/RepDot.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMap.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/RepDot.cpp: In function ‘RepDotDoNew(CoordSet*, cRepDot_t, int)’: layer2/RepDot.cpp:463:46: warning: ‘vn’ may be used uninitialized in this function [-Wmaybe-uninitialized] 463 | I->VN = ReallocForSure(I->VN, float, (vn - I->VN)); | ^ layer2/ObjectMap.cpp: In function ‘int ObjectMapValidXtal(ObjectMap*, int)’: layer2/ObjectMap.cpp:133:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 133 | if((state >= 0) && (state < I->State.size())) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapTrim(ObjectMap*, int, float*, float*, int)’: layer2/ObjectMap.cpp:914:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 914 | } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapDouble(ObjectMap*, int)’: layer2/ObjectMap.cpp:931:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 931 | } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘pymol::Result<> ObjectMapHalve(ObjectMap*, int, int)’: layer2/ObjectMap.cpp:946:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 946 | } else if((state >= 0) && (state < I->State.size()) && (I->State[state].Active)) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘void ObjectMapRegeneratePoints(ObjectMap*)’: layer2/ObjectMap.cpp:1189:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1189 | for (i=0; iState.size();i++){ | ~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘PyObject* ObjectMapAllStatesAsPyList(ObjectMap*)’: layer2/ObjectMap.cpp:1279:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1279 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘int ObjectMapAllStatesFromPyList(ObjectMap*, PyObject*)’: layer2/ObjectMap.cpp:1437:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1437 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘int ObjectMapNewCopy(PyMOLGlobals*, const ObjectMap*, ObjectMap**, int, int)’: layer2/ObjectMap.cpp:1509:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1509 | for(state = 0; state < src->State.size(); state++) { | ~~~~~~^~~~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp:1518:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1518 | if(source_state < src->State.size()) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘ObjectMapState* ObjectMapStatePrime(ObjectMap*, int)’: layer2/ObjectMap.cpp:1535:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1535 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectMap.cpp: In function ‘void ObjectMapUpdateExtents(ObjectMap*)’: layer2/ObjectMap.cpp:1548:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1548 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In member function ‘virtual void ObjectMap::invalidate(cRep_t, cRepInv_t, int)’: layer2/ObjectMap.cpp:1674:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1674 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘int ObjectMapCCP4StrToMap(ObjectMap*, char*, int, int, int, int)’: layer2/ObjectMap.cpp:2297:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 2297 | if(bytes < 256 * sizeof(int)) { | ~~~~~~^~~~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp:2307:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2307 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectMap.cpp: In function ‘int ObjectMapPHIStrToMap(ObjectMap*, char*, int, int, int)’: layer2/ObjectMap.cpp:2942:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2942 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectMap.cpp: In function ‘int ObjectMapXPLORStrToMap(ObjectMap*, char*, int, int)’: layer2/ObjectMap.cpp:3216:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 3216 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectMap.cpp: In function ‘int ObjectMapFLDStrToMap(ObjectMap*, char*, int, int, int)’: layer2/ObjectMap.cpp:3437:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 3437 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectMap.cpp: In function ‘int ObjectMapBRIXStrToMap(ObjectMap*, char*, int, int, int)’: layer2/ObjectMap.cpp:3766:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 3766 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectMap.cpp: In function ‘int ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int)’: layer2/ObjectMap.cpp:4172:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 4172 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadCCP4(PyMOLGlobals*, ObjectMap*, const char*, int, int, int, int, int)’: layer2/ObjectMap.cpp:4694:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4694 | if(state < I->State.size()) { | ~~~~~~^~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepEllipsoid.cpp -o build/temp.linux-x86_64-3.9/layer2/RepEllipsoid.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMap.cpp: In function ‘int ObjectMapACNTStrToMap(ObjectMap*, char*, int, int, int)’: layer2/ObjectMap.cpp:5245:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 5245 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadXPLOR(PyMOLGlobals*, ObjectMap*, const char*, int, int, int)’: layer2/ObjectMap.cpp:5557:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5557 | if(state < I->State.size()) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadChemPyBrick(PyMOLGlobals*, ObjectMap*, PyObject*, int, int, int)’: layer2/ObjectMap.cpp:5711:24: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 5711 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectMap.cpp: In function ‘ObjectMap* ObjectMapLoadChemPyMap(PyMOLGlobals*, ObjectMap*, PyObject*, int, int, int)’: layer2/ObjectMap.cpp:5809:24: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 5809 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Isosurf.h:24, from layer2/ObjectMap.h:25, from layer2/ObjectMap.cpp:27: layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int, int}]’: layer2/ObjectMap.cpp:198:30: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 100 | assert(sizeof...(pos) <= n_dim()); | ~~~~~~~~~~~~~~~^~~~~~~~~~ layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’: layer2/ObjectMap.cpp:1605:14: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = int; SizeTs = {int, int, int}]’ layer2/ObjectMap.cpp:5967:46: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] In file included from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:21, from /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, from layer0/os_numpy.h:8, from layer2/ObjectMap.cpp:22: /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/__multiarray_api.h: At global scope: /usr/lib64/python3.9/site-packages/numpy/core/include/numpy/__multiarray_api.h:1464:1: warning: ‘int _import_array()’ defined but not used [-Wunused-function] 1464 | _import_array(void) | ^~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepLabel.cpp -o build/temp.linux-x86_64-3.9/layer2/RepLabel.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMap.cpp: In function ‘ObjectMapDump(ObjectMap const*, char const*, int, int)’: layer2/ObjectMap.cpp:5982:24: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 239 [-Wformat-truncation=] 5982 | " ObjectMapDump: %s written to %s\n", om->Name, fname ENDFB(om->G); | ^~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer2/ObjectMap.cpp:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output 30 or more bytes (assuming 285) into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepMesh.cpp -o build/temp.linux-x86_64-3.9/layer2/RepMesh.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMap.cpp: In function ‘ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, char const*, int, int, int, int)’: layer2/ObjectMap.cpp:2961:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=] 2961 | " PHIStrToMap: %s\n", cc ENDFB(I->G); | ^~ ~~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer2/ObjectMap.cpp:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp:2970:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=] 2970 | " PHIStrToMap: %s\n", cc ENDFB(I->G); | ^~ ~~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer2/ObjectMap.cpp:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp:2976:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=] 2976 | " PHIStrToMap: %s\n", cc ENDFB(I->G); | ^~ ~~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer2/ObjectMap.cpp:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp:3058:22: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=] 3058 | " PHIStrToMap: %s\n", cc ENDFB(I->G); | ^~ ~~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer2/ObjectMap.cpp:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 16 and 1039 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Isosurf.h:24, from layer2/RepMesh.cpp:28: layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’: layer2/RepMesh.cpp:970:27: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 100 | assert(sizeof...(pos) <= n_dim()); | ~~~~~~~~~~~~~~~^~~~~~~~~~ layer2/ObjectMap.cpp: In function ‘ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int) [clone .isra.0]’: layer2/ObjectMap.cpp:4290:18: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=] 4290 | " ObjectMap: %s\n", cc ENDFB(I->G); | ^~ ~~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer2/ObjectMap.cpp:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ layer2/ObjectMap.cpp:4290:18: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=] 4290 | " ObjectMap: %s\n", cc ENDFB(I->G); | ^~ ~~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer2/ObjectMap.cpp:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 14 and 1037 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ layer2/RepMesh.cpp: In function ‘RepMeshNew(CoordSet*, int)’: layer2/RepMesh.cpp:1053:13: warning: ‘field’ may be used uninitialized in this function [-Wmaybe-uninitialized] 1053 | DeleteP(field); | ^~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepNonbonded.cpp -o build/temp.linux-x86_64-3.9/layer2/RepNonbonded.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMesh.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMesh.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepNonbondedSphere.cpp -o build/temp.linux-x86_64-3.9/layer2/RepNonbondedSphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMesh.cpp: In member function ‘ObjectMesh::update()’: layer2/ObjectMesh.cpp:502:41: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 226 [-Wformat-truncation=] 502 | "ObjectMeshUpdate-Error: map '%s' has been deleted.\n", ms->MapName | ^~ In file included from layer1/Ortho.h:32, from layer1/Scene.h:23, from layer2/ObjectMesh.cpp:33: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 50 and 305 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer2/ObjectMesh.cpp:535:40: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 232 [-Wformat-truncation=] 535 | " ObjectMesh: updating \"%s\".\n", I->Name ENDFB(G); | ^~ In file included from layer1/Ortho.h:32, from layer1/Scene.h:23, from layer2/ObjectMesh.cpp:33: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 27 and 282 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer2/ObjectMesh.cpp: In function ‘ObjectMeshDump(ObjectMesh*, char const*, int, int)’: layer2/ObjectMesh.cpp:329:27: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=] 329 | " ObjectMeshDump: %s written to %s\n", I->Name, fname ENDFB(I->G); | ^~ In file included from layer1/Ortho.h:32, from layer1/Scene.h:23, from layer2/ObjectMesh.cpp:33: layer0/Feedback.h:274:15: note: ‘snprintf’ output 31 or more bytes (assuming 286) into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepRibbon.cpp -o build/temp.linux-x86_64-3.9/layer2/RepRibbon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMolecule.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepSphere.cpp -o build/temp.linux-x86_64-3.9/layer2/RepSphere.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMolecule.cpp: In function ‘int ObjectMoleculeFillOpenValences(ObjectMolecule*, int)’: layer2/ObjectMolecule.cpp:3531:14: warning: comparison of integer expressions of different signedness: ‘const unsigned int’ and ‘signed char’ [-Wsign-compare] 3531 | if((nn >= ai->valence) || (!flag)) | ~~~^~~~~~~~~~~~~~ layer2/ObjectMolecule.cpp: In function ‘pymol::Result<> ObjectMoleculeAddBondByIndices(ObjectMolecule*, unsigned int, unsigned int, int)’: layer2/ObjectMolecule.cpp:4328:12: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 4328 | if (atm1 >= I->NAtom || atm2 >= I->NAtom) { | ~~~~~^~~~~~~~~~~ layer2/ObjectMolecule.cpp:4328:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 4328 | if (atm1 >= I->NAtom || atm2 >= I->NAtom) { | ~~~~~^~~~~~~~~~~ layer2/ObjectMolecule.cpp: In member function ‘bool ObjectMolecule::atomHasAnyCoordinates(size_t) const’: layer2/ObjectMolecule.cpp:11713:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 11713 | for (size_t i = 0; i < NCSet; ++i) { | ~~^~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepSphereGenerate.cpp -o build/temp.linux-x86_64-3.9/layer2/RepSphereGenerate.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeMOLStr2CoordSet(PyMOLGlobals*, char const*, AtomInfoType**, char const**) [clone .constprop.0]’: layer2/ObjectMolecule.cpp:7579:37: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 224 [-Wformat-truncation=] 7579 | " ObjMolMOLStr2CoordSet: title '%s'\n", nameTmp ENDFB(G) | ^~ ~~~~~~~ In file included from layer1/Ortho.h:32, from layer2/ObjectMolecule.cpp:31: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 34 and 289 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer2/ObjectMolecule.cpp:7627:16: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation] 7627 | strncpy(atInfo[a].elem, cc, cElemNameLen); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepSphereImmediate.cpp -o build/temp.linux-x86_64-3.9/layer2/RepSphereImmediate.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMolecule.cpp: In member function ‘ObjectMolecule::update()’: layer2/ObjectMolecule.cpp:10605:82: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 181 and 191 [-Wformat-truncation=] 10605 | " ObjectMolecule-DEBUG: updating representations for state %d of \"%s\".\n", | ^~ In file included from layer1/Ortho.h:32, from layer2/ObjectMolecule.cpp:31: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 68 and 333 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer2/ObjectMolecule.cpp: In function ‘ObjectMoleculeMoveAtom(ObjectMolecule*, int, int, float const*, int, int)’: layer2/ObjectMolecule.cpp:10731:43: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=] 10731 | sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n", | ^~ 10732 | buffer, v[0], v[1], v[2], state + 1, mode, 0); | ~~~~~~ layer2/ObjectMolecule.cpp:10731:21: note: directive argument in the range [-2147483647, 2147483647] 10731 | sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer2/ObjectMolecule.cpp:10731:14: note: ‘sprintf’ output between 78 and 2036 bytes into a destination of size 1024 10731 | sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n", | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 10732 | buffer, v[0], v[1], v[2], state + 1, mode, 0); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepSurface.cpp -o build/temp.linux-x86_64-3.9/layer2/RepSurface.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/RepSurface.cpp: In function ‘void RepSurfaceSmoothEdges(RepSurface*)’: layer2/RepSurface.cpp:4403:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4403 | for (auto j = 0; j < edges[i].size(); j += 3) { | ~~^~~~~~~~~~~~~~~~~ layer2/RepSurface.cpp:4415:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4415 | for (auto j = 0; j < edges[i].size(); j += 3) { | ~~^~~~~~~~~~~~~~~~~ layer2/RepSurface.cpp:4426:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4426 | for (auto i = 0; i < unique_edges.size(); i += 2) { | ~~^~~~~~~~~~~~~~~~~~~~~ In function ‘ObjectMoleculeXYZStr2CoordSet(PyMOLGlobals*, char const*, AtomInfoType**, char const**)’, inlined from ‘ObjectMoleculeReadStr(PyMOLGlobals*, ObjectMolecule*, char const**, cLoadType_t, int, int, int, int, char*, short, _OVLexicon*)’ at layer2/ObjectMolecule.cpp:8551:43: layer2/ObjectMolecule.cpp:2898:16: warning: ‘strncpy’ output may be truncated copying 4 bytes from a string of length 1023 [-Wstringop-truncation] 2898 | strncpy(ai->elem, cc, cElemNameLen); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMolecule2.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule2.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/RepWireBond.cpp -o build/temp.linux-x86_64-3.9/layer2/RepWireBond.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMolecule2.cpp: In function ‘bool ObjectMoleculeConnect(ObjectMolecule*, int&, pymol::vla&, CoordSet*, int, int, bool)’: layer2/ObjectMolecule2.cpp:3750:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 3750 | for (unsigned i = 0; i < cs->NIndex; ++i) { | ~~^~~~~~~~~~~~ layer2/ObjectMolecule2.cpp: In lambda function: layer2/ObjectMolecule2.cpp:3779:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 3779 | if (i <= j && !symop) | ~~^~~~ layer2/ObjectMolecule2.cpp: In function ‘bool ObjectMoleculeConnect(ObjectMolecule*, int&, pymol::vla&, CoordSet*, int, int, bool)’: layer2/ObjectMolecule2.cpp:3884:30: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 3884 | for (unsigned i = 0; i < cs->NIndex; ++i) { | ~~^~~~~~~~~~~~ layer2/ObjectMolecule2.cpp:3900:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 3900 | for (unsigned a = 0; a < cs->NTmpBond; ++a) { | ~~^~~~~~~~~~~~~~ layer2/ObjectMolecule2.cpp:3950:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 3950 | for (unsigned a = 0; a < cs->NTmpLinkBond; ++a) { | ~~^~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/Sculpt.cpp -o build/temp.linux-x86_64-3.9/layer2/Sculpt.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMolecule2.cpp: In function ‘ObjectMoleculeAddPseudoatom(ObjectMolecule*, int, char const*, char const*, char const*, char const*, char const*, char const*, float, int, float, float, char const*, float const*, int, int, int, int)’: layer2/ObjectMolecule2.cpp:335:27: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=] 335 | " ObjMol: created %s/%s/%s/%s`%d%c/%s\n", | ^~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer2/ObjectMolecule2.cpp:24: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 26 and 291 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectMolecule3.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule3.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectMolecule3.cpp: In function ‘std::vector ObjectMoleculeGetMolMappingVec(const ObjectMolecule&)’: layer2/ObjectMolecule3.cpp:42:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 42 | for (size_t b = 0; b < objmol.NBond; ++b) { | ~~^~~~~~~~~~~~~~ layer2/ObjectMolecule3.cpp: In function ‘void ObjectMoleculePBCUnwrap(ObjectMolecule&, bool)’: layer2/ObjectMolecule3.cpp:151:34: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 151 | for (unsigned atm = 0; atm != objmol.NAtom; ++atm) { | ~~~~^~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectSlice.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectSlice.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/SculptCache.cpp -o build/temp.linux-x86_64-3.9/layer2/SculptCache.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/SideChainHelper.cpp -o build/temp.linux-x86_64-3.9/layer2/SideChainHelper.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectSlice.cpp: In function ‘PyObject* ObjectSliceAllStatesAsPyList(ObjectSlice*)’: layer2/ObjectSlice.cpp:78:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 78 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::invalidate(cRep_t, cRepInv_t, int)’: layer2/ObjectSlice.cpp:210:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 210 | for(a = 0; a < State.size(); a++) { | ~~^~~~~~~~~~~~~~ layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::update()’: layer2/ObjectSlice.cpp:633:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 633 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectSlice.cpp: In function ‘void ObjectSliceDrag(ObjectSlice*, int, int, float*, float*, float*)’: layer2/ObjectSlice.cpp:679:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 679 | if(state < I->State.size()) | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectSlice.cpp: In function ‘int ObjectSliceGetVertex(ObjectSlice*, int, int, float*)’: layer2/ObjectSlice.cpp:750:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 750 | if(state < I->State.size()) | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectSlice.cpp: In member function ‘virtual void ObjectSlice::render(RenderInfo*)’: layer2/ObjectSlice.cpp:925:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 925 | if(state < I->State.size()) | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectSlice.cpp:967:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 967 | if(cur_state >= I->State.size()) | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ layer2/ObjectSlice.cpp:981:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 981 | if(state < I->State.size()) | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectSlice.cpp:1226:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1226 | if(cur_state >= I->State.size()) | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ layer2/ObjectSlice.cpp: In function ‘ObjectSliceState* ObjectSliceStateGetActive(ObjectSlice*, int)’: layer2/ObjectSlice.cpp:1244:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1244 | if(state < I->State.size()) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectSlice.cpp: In function ‘ObjectSlice* ObjectSliceFromMap(PyMOLGlobals*, ObjectSlice*, ObjectMap*, int, int)’: layer2/ObjectSlice.cpp:1285:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1285 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectSlice.cpp: In function ‘void ObjectSliceRecomputeExtent(ObjectSlice*)’: layer2/ObjectSlice.cpp:1362:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1362 | for(a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ In file included from layer1/PyMOLObject.h:26, from layer2/ObjectMolecule.h:24, from layer2/SideChainHelper.h:9, from layer2/SideChainHelper.cpp:10: layer2/SideChainHelper.cpp: In function ‘SideChainHelperMarkNonCartoonBonded(bool*, ObjectMolecule const*, CoordSet const*, bool, bool)’: layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized] 436 | int i = *out; | ^~~~ In file included from layer2/ObjectMolecule.h:25, from layer2/SideChainHelper.h:9, from layer2/SideChainHelper.cpp:10: layer2/AtomInfo.h:505:5: note: ‘out’ was declared here 505 | V out; | ^~~ In file included from layer1/PyMOLObject.h:26, from layer2/ObjectMolecule.h:24, from layer2/SideChainHelper.h:9, from layer2/SideChainHelper.cpp:10: layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized] 436 | int i = *out; | ^~~~ In file included from layer2/ObjectMolecule.h:25, from layer2/SideChainHelper.h:9, from layer2/SideChainHelper.cpp:10: layer2/AtomInfo.h:505:5: note: ‘out’ was declared here 505 | V out; | ^~~ In file included from layer1/PyMOLObject.h:26, from layer2/ObjectMolecule.h:24, from layer2/SideChainHelper.h:9, from layer2/SideChainHelper.cpp:10: layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized] 436 | int i = *out; | ^~~~ In file included from layer2/ObjectMolecule.h:25, from layer2/SideChainHelper.h:9, from layer2/SideChainHelper.cpp:10: layer2/AtomInfo.h:505:5: note: ‘out’ was declared here 505 | V out; | ^~~ In file included from layer1/PyMOLObject.h:26, from layer2/ObjectMolecule.h:24, from layer2/SideChainHelper.h:9, from layer2/SideChainHelper.cpp:10: layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized] 436 | int i = *out; | ^~~~ In file included from layer2/ObjectMolecule.h:25, from layer2/SideChainHelper.h:9, from layer2/SideChainHelper.cpp:10: layer2/AtomInfo.h:505:5: note: ‘out’ was declared here 505 | V out; | ^~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/VFont.cpp -o build/temp.linux-x86_64-3.9/layer2/VFont.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectSlice.cpp: In member function ‘ObjectSlice::update()’: layer2/ObjectSlice.cpp:639:42: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 225 [-Wformat-truncation=] 639 | "ObjectSliceUpdate-Error: map '%s' has been deleted.\n", oss->MapName | ^~ In file included from layer1/Ortho.h:32, from layer1/Scene.h:23, from layer2/ObjectSlice.cpp:34: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 51 and 306 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer2/ObjectSlice.cpp:650:39: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 231 [-Wformat-truncation=] 650 | " ObjectSlice: updating \"%s\".\n", I->Name ENDFB(I->G); | ^~ In file included from layer1/Ortho.h:32, from layer1/Scene.h:23, from layer2/ObjectSlice.cpp:34: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 28 and 283 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer2/ObjectSurface.cpp -o build/temp.linux-x86_64-3.9/layer2/ObjectSurface.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/AtomIterators.cpp -o build/temp.linux-x86_64-3.9/layer3/AtomIterators.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectSurface.cpp: In function ‘PyObject* ObjectSurfaceAllStatesAsPyList(ObjectSurface*)’: layer2/ObjectSurface.cpp:83:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 83 | for(int a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectSurface.cpp: In function ‘void ObjectSurfaceDump(ObjectSurface*, const char*, int, int)’: layer2/ObjectSurface.cpp:236:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 236 | if(state < I->State.size()) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer2/ObjectSurface.cpp: In member function ‘virtual void ObjectSurface::invalidate(cRep_t, cRepInv_t, int)’: layer2/ObjectSurface.cpp:281:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 281 | for(int a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectSurface.cpp: In function ‘int ObjectSurfaceInvalidateMapName(ObjectSurface*, const char*, const char*)’: layer2/ObjectSurface.cpp:311:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 311 | for(int a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/AtomIterators.cpp: In member function ‘virtual bool SeleAtomIterator::next()’: layer3/AtomIterators.cpp:61:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 61 | while ((++a) < I->Table.size()) { | ~~~~~~^~~~~~~~~~~~~~~~~ layer3/AtomIterators.cpp: In member function ‘virtual bool SeleCoordIterator::next()’: layer3/AtomIterators.cpp:129:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 129 | for (a++; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer2/ObjectSurface.cpp: In function ‘ObjectSurface* ObjectSurfaceFromBox(PyMOLGlobals*, ObjectSurface*, ObjectMap*, int, int, float*, float*, float, cIsosurfaceMode, float, pymol::vla&&, cIsosurfaceSide, int)’: layer2/ObjectSurface.cpp:1029:22: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1029 | if(I->State.size() <= state) { | ~~~~~~~~~~~~~~~~^~~~~~~~ layer2/ObjectSurface.cpp: In function ‘int ObjectSurfaceSetLevel(ObjectSurface*, float, int, int)’: layer2/ObjectSurface.cpp:1125:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1125 | for(int a = 0; a < I->State.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/CifDataValueFormatter.cpp -o build/temp.linux-x86_64-3.9/layer3/CifDataValueFormatter.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/Editor.cpp -o build/temp.linux-x86_64-3.9/layer3/Editor.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer2/ObjectSurface.cpp: In function ‘ObjectSurfaceDump(ObjectSurface*, char const*, int, int)’: layer2/ObjectSurface.cpp:268:30: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=] 268 | " ObjectSurfaceDump: %s written to %s\n", I->Name, fname ENDFB(I->G); | ^~ In file included from layer1/Ortho.h:32, from layer1/Scene.h:23, from layer2/ObjectSurface.cpp:35: layer0/Feedback.h:274:15: note: ‘snprintf’ output 34 or more bytes (assuming 289) into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer2/ObjectSurface.cpp: In member function ‘ObjectSurface::update()’: layer2/ObjectSurface.cpp:493:43: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=] 493 | " ObjectSurface: updating \"%s\".\n", I->Name ENDFB(I->G); | ^~ In file included from layer1/Ortho.h:32, from layer1/Scene.h:23, from layer2/ObjectSurface.cpp:35: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 30 and 285 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Editor.cpp: In function ‘pymol::Result<> EditorSelect(PyMOLGlobals*, const char*, const char*, const char*, const char*, int, int, int)’: layer3/Editor.cpp:776:7: warning: variable ‘result’ set but not used [-Wunused-but-set-variable] 776 | int result = false; | ^~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/MoleculeExporter.cpp -o build/temp.linux-x86_64-3.9/layer3/MoleculeExporter.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer3/Editor.cpp: In function ‘EditorDefineExtraPks(PyMOLGlobals*)’: layer3/Editor.cpp:335:29: warning: ‘%s’ directive writing up to 255 bytes into a region of size 249 [-Wformat-overflow=] 335 | sprintf(buffer, "(byres %s)", name); | ^~ ~~~~ layer3/Editor.cpp:335:12: note: ‘sprintf’ output between 9 and 264 bytes into a destination of size 256 335 | sprintf(buffer, "(byres %s)", name); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Editor.cpp:337:31: warning: ‘%s’ directive writing up to 255 bytes into a region of size 247 [-Wformat-overflow=] 337 | sprintf(buffer, "(bychain %s)", name); | ^~ ~~~~ layer3/Editor.cpp:337:12: note: ‘sprintf’ output between 11 and 266 bytes into a destination of size 256 337 | sprintf(buffer, "(bychain %s)", name); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Editor.cpp:339:32: warning: ‘%s’ directive writing up to 255 bytes into a region of size 246 [-Wformat-overflow=] 339 | sprintf(buffer, "(byobject %s)", name); | ^~ ~~~~ layer3/Editor.cpp:339:12: note: ‘sprintf’ output between 12 and 267 bytes into a destination of size 256 339 | sprintf(buffer, "(byobject %s)", name); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Editor.cpp: In function ‘EditorPrepareDrag(PyMOLGlobals*, pymol::CObject*, int, int, int, int)’: layer3/Editor.cpp:1933:29: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=] 1933 | " Editor: grabbing (%s).", name ENDFB(G); | ^~ ~~~~ In file included from layer1/Ortho.h:32, from layer1/ButMode.h:20, from layer3/Editor.cpp:28: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 22 and 277 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/Executive.cpp -o build/temp.linux-x86_64-3.9/layer3/Executive.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveIsosurfaceEtc(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int, int, int)’: layer3/Executive.cpp:986:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 986 | if(map_state >= mapObj->State.size()) | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveIsomeshEtc(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int, int, float)’: layer3/Executive.cpp:1132:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1132 | if(map_state >= mapObj->State.size()) | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveVolume(PyMOLGlobals*, const char*, const char*, float, const char*, float, int, float, int, int)’: layer3/Executive.cpp:1305:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1305 | if(map_state >= mapObj->State.size()) | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/cassert:44, from /usr/include/glm/detail/func_exponential.inl:8, from /usr/include/glm/exponential.hpp:110, from /usr/include/glm/detail/func_geometric.inl:1, from /usr/include/glm/geometric.hpp:116, from /usr/include/glm/detail/func_matrix.inl:1, from /usr/include/glm/matrix.hpp:161, from /usr/include/glm/detail/type_mat2x2.inl:1, from /usr/include/glm/detail/type_mat2x2.hpp:176, from /usr/include/glm/ext/matrix_double2x2.hpp:5, from /usr/include/glm/mat2x2.hpp:5, from /usr/include/glm/glm.hpp:119, from layer3/Executive.cpp:114: layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveSmooth(PyMOLGlobals*, const char*, int, int, int, int, int, int, float, bool)’: layer3/Executive.cpp:6095:17: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 6095 | assert(n_atom == SelectorCountAtoms(G, sele, cStateAll)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp:6155:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 6155 | for (int c = 0; c < n_atom; ++c) { | ~~^~~~~~~~ layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveMapSet(PyMOLGlobals*, const char*, int, const char*, int, int, int, int)’: layer3/Executive.cpp:6325:34: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 6325 | if(obj->State.size() > max_n_state) | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ layer3/Executive.cpp:6436:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6436 | if(src_state < obj->State.size()) { | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function ‘float ExecutiveRMSPairs(PyMOLGlobals*, const std::vector&, int, bool)’: layer3/Executive.cpp:11035:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 11035 | for(a = 0; a < pairs; a++) { | ~~^~~~~~~ layer3/Executive.cpp:11040:10: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 11040 | if(a < (pairs - 1)) | ~~^~~~~~~~~~~~~ layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveColor(PyMOLGlobals*, const char*, const char*, int, int)’: layer3/Executive.cpp:12401:7: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable] 12401 | int ok = false; | ^~ layer3/Executive.cpp: In function ‘void ExecutiveSymExp(PyMOLGlobals*, const char*, const char*, const char*, float, int, int)’: layer3/Executive.cpp:14066:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 14066 | for (unsigned idx = 0; idx < cs->NIndex; ++idx) { | ~~~~^~~~~~~~~~~~ layer3/Executive.cpp:14093:40: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 14093 | for (unsigned atm = 0; atm < new_obj->NAtom; ++atm) { | ~~~~^~~~~~~~~~~~~~~~ In file included from layer3/Executive.cpp:51: layer3/Executive.cpp: In lambda function: layer0/ListMacros.h:100:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 100 | else \ | ^~~~ layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’ 141 | ListDetach(List,copy,Link,ElemType); \ | ^~~~~~~~~~ layer3/Executive.cpp:14194:7: note: in expansion of macro ‘ListDelete’ 14194 | ListDelete(I->Spec, rec, next, SpecRec); /* NOTE: order N in list length! TO FIX */ | ^~~~~~~~~~ layer0/ListMacros.h:102:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 102 | (Elem)->Link = NULL; \ | ^ layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’ 141 | ListDetach(List,copy,Link,ElemType); \ | ^~~~~~~~~~ layer3/Executive.cpp:14194:7: note: in expansion of macro ‘ListDelete’ 14194 | ListDelete(I->Spec, rec, next, SpecRec); /* NOTE: order N in list length! TO FIX */ | ^~~~~~~~~~ layer3/Executive.cpp: In lambda function: layer0/ListMacros.h:100:9: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 100 | else \ | ^~~~ layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’ 141 | ListDetach(List,copy,Link,ElemType); \ | ^~~~~~~~~~ layer3/Executive.cpp:14206:7: note: in expansion of macro ‘ListDelete’ 14206 | ListDelete(I->Spec, rec, next, SpecRec); /* NOTE: order N in list length! TO FIX */ | ^~~~~~~~~~ layer0/ListMacros.h:102:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 102 | (Elem)->Link = NULL; \ | ^ layer0/ListMacros.h:141:4: note: in expansion of macro ‘ListDetach’ 141 | ListDetach(List,copy,Link,ElemType); \ | ^~~~~~~~~~ layer3/Executive.cpp:14206:7: note: in expansion of macro ‘ListDelete’ 14206 | ListDelete(I->Spec, rec, next, SpecRec); /* NOTE: order N in list length! TO FIX */ | ^~~~~~~~~~ layer3/Executive.cpp: In member function ‘virtual int CExecutive::click(int, int, int, int)’: layer3/Executive.cpp:14873:68: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 14873 | if(((panel->is_group) && (((xx) - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) || | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp:14874:69: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 14874 | ((!panel->is_group) && (((xx) - 1) / DIP2PIXEL(8)) > panel->nest_level)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In member function ‘virtual int CExecutive::release(int, int, int, int)’: layer3/Executive.cpp:15162:65: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 15162 | (((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) || | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp:15163:66: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 15163 | ((!panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > panel->nest_level))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In member function ‘virtual int CExecutive::drag(int, int, int)’: layer3/Executive.cpp:15304:70: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 15304 | if(((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1)) || | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp:15305:71: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 15305 | ((!panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > panel->nest_level)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp:15340:71: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 15340 | if(!((panel->is_group) && ((xx - 1) / DIP2PIXEL(8)) > (panel->nest_level + 1))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer0/OOMac.h:22, from layer3/Executive.cpp:37: layer3/Executive.cpp: In function ‘void ExecutiveFree(PyMOLGlobals*)’: layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CExecutive’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}} layer3/Executive.cpp:16294:3: note: in expansion of macro ‘DeleteP’ 16294 | DeleteP(G->Executive); | ^~~~~~~ layer3/Executive.cpp: In function ‘pymol::Result<> ExecutiveSliceNew(PyMOLGlobals*, const char*, const char*, int, int)’: layer3/Executive.cpp:16607:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16607 | if(map_state >= mapObj->State.size()) | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ In file included from layer3/Executive.h:38, from layer3/Executive.cpp:38: layer0/TrackerList.h: In instantiation of ‘pymol::TrackerAdapter::TrackerAdapterIterator::TrackerAdapterIterator(CTracker*, int) [with bool IsConst = false; T = SpecRec]’: layer0/TrackerList.h:99:29: required from ‘pymol::TrackerAdapter::iterator pymol::TrackerAdapter::begin() [with T = SpecRec; pymol::TrackerAdapter::iterator = pymol::TrackerAdapter::TrackerAdapterIterator]’ layer3/Executive.cpp:202:62: required from here layer0/TrackerList.h:80:15: warning: ‘pymol::TrackerAdapter::TrackerAdapterIterator::m_tracker’ will be initialized after [-Wreorder] 80 | CTracker* m_tracker; | ^~~~~~~~~ layer0/TrackerList.h:79:9: warning: ‘int pymol::TrackerAdapter::TrackerAdapterIterator::m_iter_id’ [-Wreorder] 79 | int m_iter_id = -1; | ^~~~~~~~~ layer0/TrackerList.h:35:14: warning: when initialized here [-Wreorder] 35 | explicit TrackerAdapterIterator(CTracker* tracker, int list_id) | ^~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function ‘ExecutiveRemoveAtoms(PyMOLGlobals*, char const*, int)’: layer3/Executive.cpp:9007:58: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 207 and 217 [-Wformat-truncation=] 9007 | " Remove: eliminated %d atoms in model \"%s\".\n", | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 42 and 307 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveSetBondSettingFromString(PyMOLGlobals*, int, char const*, char const*, char const*, int, int, int)’: layer3/Executive.cpp:11424:28: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 11424 | " Setting: %s set for %d bonds in object \"%s\".\n", | ^~ 11425 | name, nSet, obj->Name ENDF(G); | ~~~~ layer3/Executive.cpp:11424:17: note: directive argument in the range [1, 2147483647] 11424 | " Setting: %s set for %d bonds in object \"%s\".\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 42 and 560 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveGetBondSetting(PyMOLGlobals*, int, char*, char const*, int, int, int)’: layer3/Executive.cpp:11505:26: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 11505 | " Getting: %s for %d bonds in object \"%s\".\n", | ^~ 11506 | name, nSet, obj->Name ENDF(G); | ~~~~ layer3/Executive.cpp:11505:15: note: directive argument in the range [1, 2147483647] 11505 | " Getting: %s for %d bonds in object \"%s\".\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 38 and 556 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveSetBondSetting(PyMOLGlobals*, int, _object*, char const*, char const*, int, int, int)’: layer3/Executive.cpp:11605:62: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 208 and 217 [-Wformat-truncation=] 11605 | " Setting: %s set for %d bonds in object \"%s\".\n", | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 42 or more bytes (assuming 306) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveUnsetBondSetting(PyMOLGlobals*, int, char const*, char const*, int, int, int)’: layer3/Executive.cpp:11684:26: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 11684 | " Setting: %s unset for %d bonds in object \"%s\".\n", | ^~ 11685 | name, nSet, rec->obj->Name ENDF(G); | ~~~~ layer3/Executive.cpp:11684:15: note: directive argument in the range [1, 2147483647] 11684 | " Setting: %s unset for %d bonds in object \"%s\".\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 44 and 562 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveSetObjSettingFromString(PyMOLGlobals*, int, char const*, pymol::CObject*, int, int, int)’: layer3/Executive.cpp:12226:30: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 12226 | " Setting: %s set to %s in object \"%s\", state %d.\n", | ^~ 12227 | name, value2, obj->Name, state + 1 ENDF(G); | ~~~~ layer3/Executive.cpp:12226:19: note: directive argument in the range [1, 2147483647] 12226 | " Setting: %s set to %s in object \"%s\", state %d.\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 43 and 1584 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:12218:30: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 12218 | " Setting: %s set to %s in object \"%s\".\n", | ^~ 12219 | name, value2, obj->Name ENDF(G); | ~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 34 and 1566 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:12197:29: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 12197 | PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G); | ^~ ~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 21 and 1298 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveSetSettingFromString(PyMOLGlobals*, int, char const*, char const*, int, int, int)’: layer3/Executive.cpp:12129:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 12129 | " Setting: %s set for %d atoms in object \"%s\".\n", | ^~ 12130 | name, op.i4, rec->obj->Name ENDF(G); | ~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 42 and 561 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:12097:32: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 12097 | " Setting: %s set to %s in %d objects, state %d.\n", | ^~ 12098 | name, value2, nObj, state + 1 ENDF(G); | ~~~~ layer3/Executive.cpp:12097:21: note: directive argument in the range [1, 2147483647] 12097 | " Setting: %s set to %s in %d objects, state %d.\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp:12097:21: note: directive argument in the range [1, 2147483647] In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 43 and 1338 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:12094:32: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 12094 | " Setting: %s set to %s in %d objects.\n", name, value2, nObj ENDF(G); | ^~ ~~~~ layer3/Executive.cpp:12094:21: note: directive argument in the range [1, 2147483647] 12094 | " Setting: %s set to %s in %d objects.\n", name, value2, nObj ENDF(G); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 34 and 1320 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:12161:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 12161 | " Setting: %s set to %s in object \"%s\", state %d.\n", | ^~ 12162 | name, value2, rec->obj->Name, state + 1 ENDF(G); | ~~~~ layer3/Executive.cpp:12161:25: note: directive argument in the range [1, 2147483647] 12161 | " Setting: %s set to %s in object \"%s\", state %d.\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 43 and 1584 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:12153:36: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 12153 | " Setting: %s set to %s in object \"%s\".\n", | ^~ 12154 | name, value2, rec->obj->Name ENDF(G); | ~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 34 and 1566 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:12057:29: warning: ‘%s’ directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] 12057 | PRINTF " Setting: %s set to %s.\n", name, value2 ENDF(G); | ^~ ~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output between 21 and 1298 bytes into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveSetSymmetry(PyMOLGlobals*, pymol::zstring_view, int, CSymmetry const&, bool)’: layer3/Executive.cpp:5951:43: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 202 [-Wformat-truncation=] 5951 | " %s-Details: Updated symmetry for '%s'\n", __func__, obj->Name ENDFB(G); | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 56 and 311 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:5942:46: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 199 [-Wformat-truncation=] 5942 | " %s-Warning: Cannot set symmetry for '%s' (type %s)\n", __func__, | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 84 and 339 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveBond(PyMOLGlobals*, char const*, char const*, int, int, int, pymol::zstring_view)’: layer3/Executive.cpp:9358:53: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 214 and 224 [-Wformat-truncation=] 9358 | " Bond: %d bonds added to model \"%s\".\n", cnt, rec->obj->Name | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 35 and 300 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:9371:67: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 200 and 210 [-Wformat-truncation=] 9371 | " Valence: %d bond valences adjusted in model \"%s\".\n", cnt, | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 49 and 314 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:9383:59: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 208 and 218 [-Wformat-truncation=] 9383 | " Unbond: %d bonds removed from model \"%s\".\n", | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 41 and 306 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/MovieScene.cpp -o build/temp.linux-x86_64-3.9/layer3/MovieScene.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer3/Executive.cpp: In function ‘ExecutiveUnsetSetting(PyMOLGlobals*, int, pymol::zstring_view, int, int, int)’: layer3/Executive.cpp:12338:68: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 215 [-Wformat-truncation=] 12338 | " Setting: %s unset for %d atoms in object \"%s\".\n", | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 44 or more bytes (assuming 299) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:12360:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=] 12360 | " Setting: %s unset in object \"%s\", state %d.\n", | ^~ layer3/Executive.cpp:12360:25: note: directive argument in the range [1, 2147483647] 12360 | " Setting: %s unset in object \"%s\", state %d.\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 41 or more bytes (assuming 305) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:12354:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 227 [-Wformat-truncation=] 12354 | " Setting: %s unset in object \"%s\".\n", | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 32 or more bytes (assuming 287) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveSetSetting(PyMOLGlobals*, int, _object*, pymol::zstring_view, int, int, int)’: layer3/Executive.cpp:11877:70: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 217 [-Wformat-truncation=] 11877 | " Setting: %s set for %d atoms in object \"%s\".\n", | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 42 or more bytes (assuming 297) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:11788:42: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=] 11788 | " Setting: %s set to %s in %d objects, state %d.\n", | ^~ 11789 | name, value, nObj, state + 1 ENDF(G); | ~~~~~ layer3/Executive.cpp:11788:21: note: directive argument in the range [1, 2147483647] 11788 | " Setting: %s set to %s in %d objects, state %d.\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp:11788:21: note: directive argument in the range [1, 2147483647] In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 43 or more bytes (assuming 1084) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:11785:42: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=] 11785 | " Setting: %s set to %s in %d objects.\n", name, value, nObj ENDF(G); | ^~ ~~~~~ layer3/Executive.cpp:11785:21: note: directive argument in the range [1, 2147483647] 11785 | " Setting: %s set to %s in %d objects.\n", name, value, nObj ENDF(G); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 34 or more bytes (assuming 1066) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:11909:46: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=] 11909 | " Setting: %s set to %s in object \"%s\", state %d.\n", | ^~ 11910 | name, value, rec->obj->Name, state + 1 ENDF(G); | ~~~~~ layer3/Executive.cpp:11909:25: note: directive argument in the range [1, 2147483647] 11909 | " Setting: %s set to %s in object \"%s\", state %d.\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 43 or more bytes (assuming 1330) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:11902:46: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=] 11902 | " Setting: %s set to %s in object \"%s\".\n", | ^~ 11903 | name, value, rec->obj->Name ENDF(G); | ~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 34 or more bytes (assuming 1312) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:11744:39: warning: ‘%s’ directive output may be truncated writing up to 1023 bytes into a region of size 237 [-Wformat-truncation=] 11744 | PRINTF " Setting: %s set to %s.\n", name, value ENDF(G); | ^~ ~~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:282:53: note: ‘snprintf’ output 21 or more bytes (assuming 1044) into a destination of size 255 282 | #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveManageObject(PyMOLGlobals*, pymol::CObject*, int, int)’: layer3/Executive.cpp:14447:37: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=] 14447 | " Executive-Warning: name \"%s\" collides with a selection language keyword.\n", | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 73 and 328 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:14442:36: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] 14442 | " Executive: object name \"%s\" is illegal -- renamed to 'all_'.\n", obj->Name | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 61 and 316 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:14473:11: warning: ‘strcpy’ offset 0 is out of the bounds [0, 0] [-Warray-bounds] 14473 | strcpy(rec->name, obj->Name); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function ‘ExecutiveCopy(PyMOLGlobals*, char const*, char const*, int)’: layer3/Executive.cpp:9665:25: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=] 9665 | " Executive: object %s created.\n", oDst->Name ENDFB(G); | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 30 and 285 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveManageSelection(PyMOLGlobals*, char const*)’: layer3/Executive.cpp:14559:11: warning: ‘strcpy’ offset 0 is out of the bounds [0, 0] [-Warray-bounds] 14559 | strcpy(rec->name, name); | ~~~~~~^~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In member function ‘CExecutive::drag(int, int, int)’: layer3/Executive.cpp:15471:55: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=] 15471 | sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n", | ^~ 15472 | order_input, (location == -2) ? "upper" : "current"); | ~~~~~~~~~~~ layer3/Executive.cpp:15471:26: note: ‘sprintf’ output between 32 and 1057 bytes into a destination of size 1024 15471 | sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n", | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 15472 | order_input, (location == -2) ? "upper" : "current"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function ‘ExecutiveSpectrum(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, float, float, int, int, pymol::zstring_view, int, int, int)’: layer3/Executive.cpp:4764:24: warning: ‘strncpy’ specified bound 8 equals destination size [-Wstringop-truncation] 4764 | strncpy(value_s, raw_ptr, sizeof(value_e)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function ‘ExecutiveGroup(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, int, int)’: layer3/Executive.cpp:2259:40: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=] 2259 | " Executive: adding '%s' to group '%s'.\n", rec.name, rec.group_name | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 36 and 546 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveSetName(PyMOLGlobals*, pymol::zstring_view, pymol::zstring_view, bool)’: layer3/Executive.cpp:3523:41: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 222 [-Wformat-truncation=] 3523 | " Warning: Invalid characters in '%s' have been replaced or stripped\n", | ^~ 3524 | name ENDFB(G); | ~~~~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 67 and 322 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp: In function ‘ExecutiveSetSession(PyMOLGlobals*, _object*, int, int)’: layer3/Executive.cpp:5070:57: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 213 [-Wformat-truncation=] 5070 | " Executive: skipping unrecognized object \"%s\" of type %d.\n", | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 56 and 321 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ layer3/Executive.cpp:5095:58: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 210 [-Wformat-truncation=] 5095 | "ExectiveSetNamedEntries-Error: after object \"%s\".\n", rec->name ENDFB(G); | ^~ In file included from layer1/Ortho.h:32, from layer3/ExecutiveDef.h:3, from layer3/Executive.h:29, from layer3/Executive.cpp:38: layer0/Feedback.h:274:15: note: ‘snprintf’ output between 49 and 304 bytes into a destination of size 255 274 | (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, | ^ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/PlugIOManager.cpp -o build/temp.linux-x86_64-3.9/layer3/PlugIOManager.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer3/PlugIOManager.cpp: In function ‘ObjectMap* PlugIOManagerLoadVol(PyMOLGlobals*, ObjectMap*, const char*, int, int, const char*)’: layer3/PlugIOManager.cpp:416:34: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 416 | if(obj->State.size() <= state) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~ In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Isosurf.h:24, from layer2/ObjectMap.h:25, from layer3/PlugIOManager.h:23, from layer3/PlugIOManager.cpp:24: layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’: layer0/Field.h:114:19: required from ‘T& CField::get(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’ layer3/PlugIOManager.cpp:541:21: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 100 | assert(sizeof...(pos) <= n_dim()); | ~~~~~~~~~~~~~~~^~~~~~~~~~ layer3/PlugIOManager.cpp: In function ‘PlugIOManagerLoad’: layer3/PlugIOManager.cpp:946:65: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 200 [-Wformat-truncation=] 946 | " PlugIOManagerLoad: can't load trajectory into object '%s'\n", obj->Name ENDFB(G); | ^~ In file included from /usr/include/stdio.h:900, from /usr/include/python3.9/Python.h:25, from layer0/os_python.h:34, from layer3/PlugIOManager.cpp:20: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 58 and 313 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/RingFinder.cpp -o build/temp.linux-x86_64-3.9/layer3/RingFinder.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer3/RingFinder.cpp: In member function ‘void AbstractRingFinder::recursion(int, int)’: layer3/RingFinder.cpp:23:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 23 | } else if (depth < m_indices.size() - 1) { | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/Seeker.cpp -o build/temp.linux-x86_64-3.9/layer3/Seeker.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/ExecutivePython.cpp -o build/temp.linux-x86_64-3.9/layer3/ExecutivePython.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer3/Seeker.cpp: In function ‘void SeekerRefresh(PyMOLGlobals*, std::vector&)’: layer3/Seeker.cpp:485:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 485 | for(int b = 0; b < nRow; b++) { | ~~^~~~~~ layer3/Seeker.cpp: In function ‘void SeekerUpdate(PyMOLGlobals*)’: layer3/Seeker.cpp:1150:23: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1150 | if(row->len < min_pad) { | ~~~~~~~~~^~~~~~~~~ layer3/Seeker.cpp:1186:23: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1186 | if(row->len < min_pad) { | ~~~~~~~~~^~~~~~~~~ layer3/Seeker.cpp: In lambda function: layer3/Seeker.cpp:1248:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 1248 | for(int i = 0; i < str_size; i++){ | ~~^~~~~~~~~~ layer3/Seeker.cpp: In function ‘void SeekerUpdate(PyMOLGlobals*)’: layer3/Seeker.cpp:1930:27: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1930 | if(row->ext_len < stop) | ~~~~~~~~~~~~~^~~~~~ In file included from layer0/vla.h:7, from layer1/Symmetry.h:26, from layer1/PyMOLObject.h:27, from layer1/Seq.h:21, from layer3/Seeker.cpp:26: layer3/Seeker.cpp: In function ‘void SeekerFree(PyMOLGlobals*)’: layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CSeeker’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}} layer3/Seeker.cpp:1964:3: note: in expansion of macro ‘DeleteP’ 1964 | DeleteP(G->Seeker); | ^~~~~~~ layer3/ExecutivePython.cpp: In function ‘pymol::Result<> ExecutiveSetRawAlignment(PyMOLGlobals*, pymol::zstring_view, PyObject*, pymol::zstring_view, int, int)’: layer3/ExecutivePython.cpp:171:23: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 171 | for(size_t c = 0; c < n_cols; ++c) { | ~~^~~~~~~~ layer3/ExecutivePython.cpp:180:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 180 | for(size_t i = 0; i < n_idx; ++i) { | ~~^~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/MaeExportHelpers.cpp -o build/temp.linux-x86_64-3.9/layer3/MaeExportHelpers.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/Selector.cpp -o build/temp.linux-x86_64-3.9/layer3/Selector.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from layer2/AtomInfo.h:23, from layer3/MaeExportHelpers.h:11, from layer3/MaeExportHelpers.cpp:11: layer3/MaeExportHelpers.cpp: In function ‘MaeExportGetAtomStyle(PyMOLGlobals*, SeleCoordIterator const&)’: layer1/Setting.h:436:11: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized] 436 | int i = *out; | ^~~~ In file included from layer3/MaeExportHelpers.h:11, from layer3/MaeExportHelpers.cpp:11: layer2/AtomInfo.h:505:5: note: ‘out’ was declared here 505 | V out; | ^~~ layer3/Selector.cpp: In member function ‘virtual bool SelectorAtomIterator::next()’: layer3/Selector.cpp:185:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | if ((++a) >= selector->Table.size()) | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘bool SelectorIsSelectionDiscrete(PyMOLGlobals*, SelectorID_t, bool)’: layer3/Selector.cpp:1028:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1028 | for(int a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorClassifyAtoms(PyMOLGlobals*, int, int, ObjectMolecule*)’: layer3/Selector.cpp:1082:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1082 | while(a < I->Table.size()) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:1106:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1106 | while(a1 < I->Table.size()) { | ~~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘const char* SelectorGetNameFromIndex(PyMOLGlobals*, SelectorID_t)’: layer3/Selector.cpp:1519:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1519 | for(int a = 1; a < I->Info.size(); a++) { | ~~^~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’: layer3/Selector.cpp:1653:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1653 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:1680:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1680 | while(a1 < I->Table.size()) { | ~~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:1874:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1874 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘PyObject* SelectorColorectionGet(PyMOLGlobals*, const char*)’: layer3/Selector.cpp:2687:18: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2687 | for(b = 0; b < n_used; b++) { | ~~^~~~~~~~ layer3/Selector.cpp:2703:16: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2703 | for(a = 0; a < n_used; a++) { | ~~^~~~~~~~ layer3/Selector.cpp:2715:18: warning: comparison of integer expressions of different signedness: ‘ov_size’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2715 | for(b = 0; b < n_used; b++) { | ~~^~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorColorectionApply(PyMOLGlobals*, PyObject*, const char*)’: layer3/Selector.cpp:2763:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 2763 | for(b = 0; b < n_used; b++) { /* update selection indices */ | ~~^~~~~~~~ layer3/Selector.cpp:2768:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2768 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:2772:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘ov_size’ {aka ‘long unsigned int’} [-Wsign-compare] 2772 | for(b = 0; b < n_used; b++) { | ~~^~~~~~~~ layer3/Selector.cpp: In function ‘PyObject* SelectorSecretsAsPyList(PyMOLGlobals*)’: layer3/Selector.cpp:2873:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2873 | for(int a = 0; a < I->Info.size(); a++) { | ~~^~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘PyObject* SelectorAsPyList(PyMOLGlobals*, SelectorID_t)’: layer3/Selector.cpp:2952:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2952 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorCountStates(PyMOLGlobals*, int)’: layer3/Selector.cpp:3446:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3446 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorCheckIntersection(PyMOLGlobals*, int, int)’: layer3/Selector.cpp:3470:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3470 | for(int a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorCountAtoms(PyMOLGlobals*, int, int)’: layer3/Selector.cpp:3488:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3488 | for(int a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘void SelectorSetDeleteFlagOnSelectionInObject(PyMOLGlobals*, int, ObjectMolecule*, signed char)’: layer3/Selector.cpp:3503:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3503 | for(int a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int* SelectorGetIndexVLAImpl(PyMOLGlobals*, CSelector*, SelectorID_t)’: layer3/Selector.cpp:3589:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3589 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘void SelectorLogSele(PyMOLGlobals*, const char*)’: layer3/Selector.cpp:3648:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3648 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘ObjectMolecule* SelectorGetSingleObjectMolecule(PyMOLGlobals*, SelectorID_t)’: layer3/Selector.cpp:3813:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3813 | for (a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘ObjectMolecule* SelectorGetFirstObjectMolecule(PyMOLGlobals*, SelectorID_t)’: layer3/Selector.cpp:3843:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3843 | for (a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘ObjectMolecule** SelectorGetObjectMoleculeVLA(PyMOLGlobals*, SelectorID_t)’: layer3/Selector.cpp:3867:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3867 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorSubdivide(PyMOLGlobals*, const char*, SelectorID_t, SelectorID_t, SelectorID_t, SelectorID_t, const char*, const char*, int*)’: layer3/Selector.cpp:4266:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4266 | for(a = 0; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorGetSeleNCSet(PyMOLGlobals*, SelectorID_t)’: layer3/Selector.cpp:4570:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4570 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorGetArrayNCSet(PyMOLGlobals*, const sele_array_t&, int)’: layer3/Selector.cpp:4600:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4600 | for(a = start; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorMapMaskVDW(PyMOLGlobals*, int, ObjectMapState*, float, int)’: layer3/Selector.cpp:4761:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4761 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorMapGaussian(PyMOLGlobals*, int, ObjectMapState*, float, int, int, int, int, float)’: layer3/Selector.cpp:5121:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5121 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:5165:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5165 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorMapCoulomb(PyMOLGlobals*, int, ObjectMapState*, float, int, int, int, float)’: layer3/Selector.cpp:5373:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5373 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorCreateObjectMolecule(PyMOLGlobals*, SelectorID_t, const char*, int, int, int, int, int, int, int)’: layer3/Selector.cpp:6062:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 6062 | if(ob) | ^~ layer3/Selector.cpp:6066:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 6066 | SelectorUpdateTable(G, source, -1); | ^~~~~~~~~~~~~~~~~~~ layer3/Selector.cpp:6077:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6077 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In lambda function: layer3/Selector.cpp:6103:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6103 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:6133:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6133 | for(a = cNDummyModels; a < I->Obj.size(); a++) { /* find bonds wholly contained in the selection */ | ~~^~~~~~~~~~~~~~~ layer3/Selector.cpp:6159:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6159 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:6200:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6200 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:6224:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6224 | for(a = cNDummyAtoms; a < I->Table.size(); a++) /* any selected atoms in this state? */ | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorEmbedSelection(PyMOLGlobals*, const int*, pymol::zstring_view, ObjectMolecule*, int, int)’: layer3/Selector.cpp:6660:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6660 | for(a = start; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘sele_array_t SelectorSelectFromTagDict(PyMOLGlobals*, const std::unordered_map&)’: layer3/Selector.cpp:6755:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6755 | for(int a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Isosurf.h:24, from layer2/ObjectMap.h:25, from layer3/Selector.h:27, from layer3/Selector.cpp:39: layer3/Selector.cpp: In function ‘void SelectorUpdateTableSingleObject(PyMOLGlobals*, ObjectMolecule*, int, bool)’: layer3/Selector.cpp:6997:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6997 | assert(c == I->Table.size()); | ~~^~~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘sele_array_t SelectorGetSeleArrayForAtomIndices(CSelector*, ObjectMolecule*, const int*, int, bool)’: layer3/Selector.cpp:7010:26: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 7010 | assert(I->Table.size() == cNDummyAtoms + obj->NAtom); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorModulate1(PyMOLGlobals*, EvalElem*, int)’: layer3/Selector.cpp:7293:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7293 | for (a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7316:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7316 | for(a = 0; ok && a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7379:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7379 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7393:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7393 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7416:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7416 | for(a = 0; ok && a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7457:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7457 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorSelect0(PyMOLGlobals*, EvalElem*)’: layer3/Selector.cpp:7490:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7490 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7501:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7501 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7506:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7506 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7513:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7513 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7517:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7517 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7521:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7521 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7525:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7525 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7529:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7529 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7538:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7538 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7555:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7555 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7560:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7560 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7565:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7565 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7570:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7570 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7575:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7575 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7580:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7580 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7585:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7585 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7589:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7589 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7593:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7593 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7598:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7598 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7603:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7603 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7610:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7610 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7626:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7626 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7632:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7632 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7641:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7641 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7653:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7653 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:7673:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7673 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘pymol::Result<> SelectorSelect1(PyMOLGlobals*, EvalElem*, int)’: layer3/Selector.cpp:8378:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8378 | for(a = cNDummyModels; a < I->Obj.size(); a++) | ~~^~~~~~~~~~~~~~~ layer3/Selector.cpp:8388:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8388 | else if(model > I->Obj.size()) | ~~~~~~^~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorSelect2(PyMOLGlobals*, EvalElem*, int)’: layer3/Selector.cpp:8470:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8470 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8474:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8474 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8522:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8522 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8533:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8533 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8544:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8544 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8555:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8555 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8570:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8570 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8581:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8581 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8592:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8592 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8603:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8603 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8618:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8618 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8629:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8629 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8640:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8640 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:8651:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8651 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorLogic1(PyMOLGlobals*, EvalElem*, int)’: layer3/Selector.cpp:9128:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 9128 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:9157:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 9157 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘int SelectorOperator22(PyMOLGlobals*, EvalElem*, int)’: layer3/Selector.cpp:9416:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 9416 | for(a = 0; a < table_size; a++) { | ~~^~~~~~~~~~~~ layer3/Selector.cpp:9438:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 9438 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:9468:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 9468 | for(a = 0; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:9473:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 9473 | for(a = cNDummyAtoms; a < I->Table.size(); a++) | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘pymol::Result > > SelectorEvaluate(PyMOLGlobals*, std::vector >&, int, int)’: layer3/Selector.cpp:9622:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 9622 | while(ok && c < word.size()) { | ~~^~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘DistSet* SelectorGetDistSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, float, float*)’: layer3/Selector.cpp:10213:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 10213 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘DistSet* SelectorGetAngleSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, int, int, float*, int*)’: layer3/Selector.cpp:10495:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 10495 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:10519:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 10519 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp: In function ‘DistSet* SelectorGetDihedralSet(PyMOLGlobals*, DistSet*, int, int, int, int, int, int, int, int, int, float*, int*)’: layer3/Selector.cpp:10724:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 10724 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ layer3/Selector.cpp:10801:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 10801 | for(a = cNDummyAtoms; a < I->Table.size(); a++) { | ~~^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/cassert:44, from layer0/Field.h:24, from layer0/Isosurf.h:24, from layer2/ObjectMap.h:25, from layer3/Selector.h:27, from layer3/Selector.cpp:39: layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int, int}]’: layer3/Selector.cpp:4800:18: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 100 | assert(sizeof...(pos) <= n_dim()); | ~~~~~~~~~~~~~~~^~~~~~~~~~ layer0/Field.h: In instantiation of ‘T* CField::ptr(SizeTs ...) [with T = float; SizeTs = {int, int, int}]’: layer3/Selector.cpp:5309:20: required from here layer0/Field.h:100:27: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] layer3/Selector.cpp: In function ‘SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)’: layer3/Selector.cpp:1722:70: warning: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size 207 [-Wformat-truncation=] 1722 | " AssignSS-Warning: Ignoring incomplete residue /%s/%s/%s/%d%c ...\n", | ^~ In file included from /usr/include/stdio.h:900, from /usr/include/c++/11/cstdio:42, from /usr/include/c++/11/ext/string_conversions.h:43, from /usr/include/c++/11/bits/basic_string.h:6608, from /usr/include/c++/11/string:55, from layer3/Selector.cpp:20: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 59 and 324 bytes into a destination of size 255 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/SelectorTmp.cpp -o build/temp.linux-x86_64-3.9/layer3/SelectorTmp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/SpecRec.cpp -o build/temp.linux-x86_64-3.9/layer3/SpecRec.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer3/SpecRecSpecial.cpp -o build/temp.linux-x86_64-3.9/layer3/SpecRecSpecial.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer4/Cmd.cpp -o build/temp.linux-x86_64-3.9/layer4/Cmd.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer4/Cmd.cpp: In function ‘PyObject* CmdPushUndo(PyObject*, PyObject*)’: layer4/Cmd.cpp:2216:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2216 | if(ok) | ^~ layer4/Cmd.cpp:2218:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2218 | if(s0[0]) | ^~ layer4/Cmd.cpp: In function ‘PyObject* CmdGetMinMax(PyObject*, PyObject*)’: layer4/Cmd.cpp:4469:7: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable] 4469 | int ok = false; | ^~ In file included from layer4/Cmd.cpp:77: layer1/PConv.h: In instantiation of ‘PyObject* PConvToPyObject(const std::array<_Tp, _Nm>&) [with T = float; long unsigned int N = 3; PyObject = _object]’: layer4/Cmd.cpp:380:27: required from ‘PyObject* APIResult(PyMOLGlobals*, pymol::Result&) [with T = std::array; PyObject = _object]’ layer4/Cmd.cpp:4034:19: required from here layer1/PConv.h:259:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 259 | for (int i = 0; i < N; ++i) { | ~~^~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer4/Menu.cpp -o build/temp.linux-x86_64-3.9/layer4/Menu.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer4/PopUp.cpp -o build/temp.linux-x86_64-3.9/layer4/PopUp.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp In file included from layer0/OOMac.h:22, from layer4/PopUp.cpp:23: layer4/PopUp.cpp: In function ‘void PopUpFree(Block*)’: layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CPopUp’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}} layer4/PopUp.cpp:401:3: note: in expansion of macro ‘DeleteP’ 401 | DeleteP(I); | ^~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer5/PyMOL.cpp -o build/temp.linux-x86_64-3.9/layer5/PyMOL.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp layer5/PyMOL.cpp: In function ‘PyMOLreturn_status Loader(CPyMOL*, const char*, const char*, int, const char*, const char*, int, int, int, int, int, int)’: layer5/PyMOL.cpp:1546:27: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘long unsigned int’ [-Wsign-compare] 1546 | if((stop - start) >= sizeof(WordType)) | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ In file included from layer5/PyMOL.cpp:23: layer5/PyMOL.cpp: In function ‘void PyMOL_Stop(CPyMOL*)’: layer0/MemoryDebug.h:86:32: warning: deleting object of polymorphic class type ‘CMovie’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 86 | #define DeleteP(ptr) {if(ptr) {delete ptr;ptr=NULL;}} layer5/PyMOL.cpp:1987:3: note: in expansion of macro ‘DeleteP’ 1987 | DeleteP(G->Movie); | ^~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer5/TestPyMOL.cpp -o build/temp.linux-x86_64-3.9/layer5/TestPyMOL.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD layer5/main.cpp -o build/temp.linux-x86_64-3.9/layer5/main.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVContext.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVContext.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp ov/src/OVContext.cpp: In function ‘void OVContext_Del(OVContext*)’: ov/src/OVContext.cpp:21:13: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable] 21 | OVHeap *heap = I->heap; | ^~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVHeap.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVHeap.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVHeapArray.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVHeapArray.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVLexicon.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVLexicon.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVOneToAny.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVOneToAny.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVOneToOne.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVOneToOne.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/OVRandom.cpp -o build/temp.linux-x86_64-3.9/ov/src/OVRandom.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_FREETYPE -DPYMOL_OPENMP -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -DMMTF_MSGPACK_USE_CPP11 -D_PYMOL_NO_MAIN -D_PYMOL_NUMPY -Iinclude -Icontrib/uiuc/plugins/include -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Ibuild/generated -Icontrib/uiuc/plugins/molfile_plugin/src -Icontrib/mmtf-c -I/usr/lib64/python3.9/site-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.9 -c -MMD ov/src/ov_utility.cpp -o build/temp.linux-x86_64-3.9/ov/src/ov_utility.o -Werror=return-type -Wunused-variable -Wno-switch -Wno-narrowing -Wno-char-subscripts -O2 -fopenmp g++ -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-x86_64-3.9/build/generated/ShaderText.o build/temp.linux-x86_64-3.9/contrib/mmtf-c/mmtf_parser.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/hash.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/inthash.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/netcdfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o build/temp.linux-x86_64-3.9/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o build/temp.linux-x86_64-3.9/layer0/Block.o build/temp.linux-x86_64-3.9/layer0/CarveHelper.o build/temp.linux-x86_64-3.9/layer0/ContourSurf.o build/temp.linux-x86_64-3.9/layer0/Crystal.o build/temp.linux-x86_64-3.9/layer0/Deferred.o build/temp.linux-x86_64-3.9/layer0/Err.o build/temp.linux-x86_64-3.9/layer0/Feedback.o build/temp.linux-x86_64-3.9/layer0/Field.o build/temp.linux-x86_64-3.9/layer0/File.o build/temp.linux-x86_64-3.9/layer0/GenericBuffer.o build/temp.linux-x86_64-3.9/layer0/GraphicsUtil.o build/temp.linux-x86_64-3.9/layer0/Isosurf.o build/temp.linux-x86_64-3.9/layer0/Map.o build/temp.linux-x86_64-3.9/layer0/Match.o build/temp.linux-x86_64-3.9/layer0/Matrix.o build/temp.linux-x86_64-3.9/layer0/MemoryDebug.o build/temp.linux-x86_64-3.9/layer0/MemoryUsage.o build/temp.linux-x86_64-3.9/layer0/MyPNG.o build/temp.linux-x86_64-3.9/layer0/Parse.o build/temp.linux-x86_64-3.9/layer0/Pixmap.o build/temp.linux-x86_64-3.9/layer0/PostProcess.o build/temp.linux-x86_64-3.9/layer0/ShaderMgr.o build/temp.linux-x86_64-3.9/layer0/ShaderPrg.o build/temp.linux-x86_64-3.9/layer0/Sphere.o build/temp.linux-x86_64-3.9/layer0/Tetsurf.o build/temp.linux-x86_64-3.9/layer0/Texture.o build/temp.linux-x86_64-3.9/layer0/Tracker.o build/temp.linux-x86_64-3.9/layer0/Triangle.o build/temp.linux-x86_64-3.9/layer0/Util.o build/temp.linux-x86_64-3.9/layer0/Util2.o build/temp.linux-x86_64-3.9/layer0/Vector.o build/temp.linux-x86_64-3.9/layer0/Word.o build/temp.linux-x86_64-3.9/layer0/ccealignmodule.o 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build/temp.linux-x86_64-3.9/layer1/PConv.o build/temp.linux-x86_64-3.9/layer1/Picking.o build/temp.linux-x86_64-3.9/layer1/Pop.o build/temp.linux-x86_64-3.9/layer1/PyMOLObject.o build/temp.linux-x86_64-3.9/layer1/Ray.o build/temp.linux-x86_64-3.9/layer1/Rep.o build/temp.linux-x86_64-3.9/layer1/Scene.o build/temp.linux-x86_64-3.9/layer1/SceneMouse.o build/temp.linux-x86_64-3.9/layer1/ScenePicking.o build/temp.linux-x86_64-3.9/layer1/SceneRay.o build/temp.linux-x86_64-3.9/layer1/SceneRender.o build/temp.linux-x86_64-3.9/layer1/ScrollBar.o build/temp.linux-x86_64-3.9/layer1/Seq.o build/temp.linux-x86_64-3.9/layer1/Setting.o build/temp.linux-x86_64-3.9/layer1/Shaker.o build/temp.linux-x86_64-3.9/layer1/SymOp.o build/temp.linux-x86_64-3.9/layer1/SymOpPConv.o build/temp.linux-x86_64-3.9/layer1/SymOpTools.o build/temp.linux-x86_64-3.9/layer1/Symmetry.o build/temp.linux-x86_64-3.9/layer1/Text.o build/temp.linux-x86_64-3.9/layer1/TypeFace.o build/temp.linux-x86_64-3.9/layer1/View.o 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build/temp.linux-x86_64-3.9/layer2/ObjectGadgetRamp.o build/temp.linux-x86_64-3.9/layer2/ObjectGroup.o build/temp.linux-x86_64-3.9/layer2/ObjectMap.o build/temp.linux-x86_64-3.9/layer2/ObjectMesh.o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule.o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule2.o build/temp.linux-x86_64-3.9/layer2/ObjectMolecule3.o build/temp.linux-x86_64-3.9/layer2/ObjectSlice.o build/temp.linux-x86_64-3.9/layer2/ObjectSurface.o build/temp.linux-x86_64-3.9/layer2/ObjectVolume.o build/temp.linux-x86_64-3.9/layer2/RepAngle.o build/temp.linux-x86_64-3.9/layer2/RepCartoon.o build/temp.linux-x86_64-3.9/layer2/RepCylBond.o build/temp.linux-x86_64-3.9/layer2/RepDihedral.o build/temp.linux-x86_64-3.9/layer2/RepDistDash.o build/temp.linux-x86_64-3.9/layer2/RepDistLabel.o build/temp.linux-x86_64-3.9/layer2/RepDot.o build/temp.linux-x86_64-3.9/layer2/RepEllipsoid.o build/temp.linux-x86_64-3.9/layer2/RepLabel.o build/temp.linux-x86_64-3.9/layer2/RepMesh.o build/temp.linux-x86_64-3.9/layer2/RepNonbonded.o build/temp.linux-x86_64-3.9/layer2/RepNonbondedSphere.o build/temp.linux-x86_64-3.9/layer2/RepRibbon.o build/temp.linux-x86_64-3.9/layer2/RepSphere.o build/temp.linux-x86_64-3.9/layer2/RepSphereGenerate.o build/temp.linux-x86_64-3.9/layer2/RepSphereImmediate.o build/temp.linux-x86_64-3.9/layer2/RepSurface.o build/temp.linux-x86_64-3.9/layer2/RepWireBond.o build/temp.linux-x86_64-3.9/layer2/Sculpt.o build/temp.linux-x86_64-3.9/layer2/SculptCache.o build/temp.linux-x86_64-3.9/layer2/SideChainHelper.o build/temp.linux-x86_64-3.9/layer2/VFont.o build/temp.linux-x86_64-3.9/layer3/AtomIterators.o build/temp.linux-x86_64-3.9/layer3/CifDataValueFormatter.o build/temp.linux-x86_64-3.9/layer3/Editor.o build/temp.linux-x86_64-3.9/layer3/Executive.o build/temp.linux-x86_64-3.9/layer3/ExecutivePython.o build/temp.linux-x86_64-3.9/layer3/MaeExportHelpers.o build/temp.linux-x86_64-3.9/layer3/MoleculeExporter.o build/temp.linux-x86_64-3.9/layer3/MovieScene.o build/temp.linux-x86_64-3.9/layer3/PlugIOManager.o build/temp.linux-x86_64-3.9/layer3/RingFinder.o build/temp.linux-x86_64-3.9/layer3/Seeker.o build/temp.linux-x86_64-3.9/layer3/Selector.o build/temp.linux-x86_64-3.9/layer3/SelectorTmp.o build/temp.linux-x86_64-3.9/layer3/SpecRec.o build/temp.linux-x86_64-3.9/layer3/SpecRecSpecial.o build/temp.linux-x86_64-3.9/layer4/Cmd.o build/temp.linux-x86_64-3.9/layer4/Menu.o build/temp.linux-x86_64-3.9/layer4/PopUp.o build/temp.linux-x86_64-3.9/layer5/PyMOL.o build/temp.linux-x86_64-3.9/layer5/TestPyMOL.o build/temp.linux-x86_64-3.9/layer5/main.o build/temp.linux-x86_64-3.9/ov/src/OVContext.o build/temp.linux-x86_64-3.9/ov/src/OVHeap.o build/temp.linux-x86_64-3.9/ov/src/OVHeapArray.o build/temp.linux-x86_64-3.9/ov/src/OVLexicon.o build/temp.linux-x86_64-3.9/ov/src/OVOneToAny.o build/temp.linux-x86_64-3.9/ov/src/OVOneToOne.o build/temp.linux-x86_64-3.9/ov/src/OVRandom.o build/temp.linux-x86_64-3.9/ov/src/ov_utility.o -L/usr/lib64 -L/usr/lib -L/usr/lib64 -lpng -lfreetype -lxml2 -lGL -lGLEW -lnetcdf -o build/lib.linux-x86_64-3.9/pymol/_cmd.cpython-39-x86_64-linux-gnu.so -fopenmp contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:62:16: warning: type ‘struct parm’ violates the C++ One Definition Rule [-Wodr] 62 | typedef struct parm { | ^ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:59:16: note: a different type is defined in another translation unit 59 | typedef struct parm { | ^ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:63:8: note: the first difference of corresponding definitions is field ‘title’ 63 | char title[85]; | ^ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:60:17: note: a field with different name is defined in another translation unit 60 | char ititl[81]; | ^ contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:33:3: warning: type ‘struct parmdata’ violates the C++ One Definition Rule [-Wodr] 33 | } parmdata; | ^ contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:32:3: note: a different type is defined in another translation unit 32 | } parmdata; | ^ contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:28:15: note: the first difference of corresponding definitions is field ‘prm’ 28 | parmstruct *prm; | ^ contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:28:13: note: a field with different name is defined in another translation unit 28 | ReadPARM *rp; | ^ layer0/Isosurf.cpp:47:16: warning: type ‘struct PointType’ violates the C++ One Definition Rule [-Wodr] 47 | typedef struct PointType { | ^ layer0/Tetsurf.cpp:46:3: note: a different type is defined in another translation unit 46 | } PointType; | ^ layer0/Isosurf.cpp:49:7: note: the first difference of corresponding definitions is field ‘NLink’ 49 | int NLink; | ^ layer0/Tetsurf.cpp:43:9: note: a field with different name is defined in another translation unit 43 | float Normal[3]; | ^ ov/src/OVOneToAny.cpp:15:3: warning: type ‘struct up_element’ violates the C++ One Definition Rule [-Wodr] 15 | } up_element; | ^ ov/src/OVOneToOne.cpp:15:3: note: a different type is defined in another translation unit 15 | } up_element; | ^ ov/src/OVOneToOne.cpp:14:25: note: the first difference of corresponding definitions is field ‘reverse_next’ 14 | ov_size forward_next, reverse_next; | ^ ov/src/OVOneToOne.cpp:15:3: note: a type with different number of fields is defined in another translation unit 15 | } up_element; | ^ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function ‘recreate_command_line’: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1334:11: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 1334 | line[0] = '\0'; | ^ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1333:26: note: destination object of size 0 allocated by ‘malloc’ 1333 | line = (char *) malloc (sizeof(char) * len); | ^ layer3/Executive.cpp: In function ‘ExecutiveManageObject’: layer3/Executive.cpp:14473:11: warning: ‘strcpy’ writing between 1 and 256 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=] 14473 | strcpy(rec->name, obj->Name); | ^ layer3/Executive.cpp: In function ‘ExecutiveManageSelection’: layer3/Executive.cpp:14559:11: warning: ‘strcpy’ writing 1 or more bytes into a region of size 0 overflows the destination [-Wstringop-overflow=] 14559 | strcpy(rec->name, name); | ^ building 'chempy.champ._champ' extension creating build/temp.linux-x86_64-3.9/contrib/champ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/champ.c -o build/temp.linux-x86_64-3.9/contrib/champ/champ.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/chiral.c -o build/temp.linux-x86_64-3.9/contrib/champ/chiral.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/err2.c -o build/temp.linux-x86_64-3.9/contrib/champ/err2.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/feedback2.c -o build/temp.linux-x86_64-3.9/contrib/champ/feedback2.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/list.c -o build/temp.linux-x86_64-3.9/contrib/champ/list.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/os_memory.c -o build/temp.linux-x86_64-3.9/contrib/champ/os_memory.o contrib/champ/os_memory.c: In function ‘OSMemoryZero’: contrib/champ/os_memory.c:55:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 55 | while(count&&(((int)p)&mask)) { | ^ contrib/champ/os_memory.c: In function ‘OSMemoryHashAdd’: contrib/champ/os_memory.c:137:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 137 | hash=(int)rec; | ^ contrib/champ/os_memory.c: In function ‘OSMemoryHashRemove’: contrib/champ/os_memory.c:150:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 150 | hash=(int)rec; | ^ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/sort.c -o build/temp.linux-x86_64-3.9/contrib/champ/sort.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/strblock.c -o build/temp.linux-x86_64-3.9/contrib/champ/strblock.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/vla.c -o build/temp.linux-x86_64-3.9/contrib/champ/vla.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -Icontrib/champ -I/usr/include/python3.9 -c -MMD contrib/champ/champ_module.c -o build/temp.linux-x86_64-3.9/contrib/champ/champ_module.o gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection build/temp.linux-x86_64-3.9/contrib/champ/champ.o build/temp.linux-x86_64-3.9/contrib/champ/champ_module.o build/temp.linux-x86_64-3.9/contrib/champ/chiral.o build/temp.linux-x86_64-3.9/contrib/champ/err2.o build/temp.linux-x86_64-3.9/contrib/champ/feedback2.o build/temp.linux-x86_64-3.9/contrib/champ/list.o build/temp.linux-x86_64-3.9/contrib/champ/os_memory.o build/temp.linux-x86_64-3.9/contrib/champ/sort.o build/temp.linux-x86_64-3.9/contrib/champ/strblock.o build/temp.linux-x86_64-3.9/contrib/champ/vla.o -L/usr/lib64 -o build/lib.linux-x86_64-3.9/chempy/champ/_champ.cpython-39-x86_64-linux-gnu.so + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.uocWNV + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64 ++ dirname /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64 + cd pymol-open-source-2.5.0 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 ' + /usr/bin/python3 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64 --use-msgpackc=c++11 --use-openmp=yes --pymol-path=/usr/lib64/python3.9/site-packages/pymol running install running install_lib creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64 creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9 creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin copying build/lib.linux-x86_64-3.9/chempy/bmin/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin copying build/lib.linux-x86_64-3.9/chempy/bmin/commands.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin copying build/lib.linux-x86_64-3.9/chempy/bmin/realtime.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin copying build/lib.linux-x86_64-3.9/chempy/bmin/state.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin copying build/lib.linux-x86_64-3.9/chempy/bmin/util.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ copying build/lib.linux-x86_64-3.9/chempy/champ/_champ.cpython-39-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ copying build/lib.linux-x86_64-3.9/chempy/champ/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ copying build/lib.linux-x86_64-3.9/chempy/champ/amber99.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ copying build/lib.linux-x86_64-3.9/chempy/champ/assign.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ copying build/lib.linux-x86_64-3.9/chempy/champ/formal_charges.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fast copying build/lib.linux-x86_64-3.9/chempy/fast/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fast creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fragments copying build/lib.linux-x86_64-3.9/chempy/fragments/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fragments creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf copying build/lib.linux-x86_64-3.9/chempy/mmtf/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf copying build/lib.linux-x86_64-3.9/chempy/mmtf/io.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker copying build/lib.linux-x86_64-3.9/chempy/tinker/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker copying build/lib.linux-x86_64-3.9/chempy/tinker/amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker copying build/lib.linux-x86_64-3.9/chempy/tinker/keyword.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker copying build/lib.linux-x86_64-3.9/chempy/tinker/realtime.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker copying build/lib.linux-x86_64-3.9/chempy/tinker/state.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker copying build/lib.linux-x86_64-3.9/chempy/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/arc.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/bond_amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/bond_mmff.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/bonds.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/brick.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/cc1.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/charge.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/cif.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/cpv.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/dictdb.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/gamess1.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/gms.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/hetatm.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/io.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/lst.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/mae.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/map.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/mass.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/mmd.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/models.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/mol.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/mol2.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/neighbor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/pdb.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/pkl.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/place.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/protein.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/protein_amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/protein_amber99.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/protein_mmff.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/protein_residues.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/sdf.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/solvate.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/water_amber.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/water_residues.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy copying build/lib.linux-x86_64-3.9/chempy/xyz.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/askpartial.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/change_confirm.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/colors.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/create_shortcut.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/fetch.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/help_shortcut.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_aln.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_mae.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_map.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_mtz.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/load_traj.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/movieexport.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/pluginitem.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/pluginmanager.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/png.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/props.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/render.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/save_molecule.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/save_object.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/shortcut_menu.ui -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms copying build/lib.linux-x86_64-3.9/pmg_qt/forms/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax copying build/lib.linux-x86_64-3.9/pmg_qt/syntax/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax copying build/lib.linux-x86_64-3.9/pmg_qt/syntax/pml.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax copying build/lib.linux-x86_64-3.9/pmg_qt/syntax/pmlparser.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax copying build/lib.linux-x86_64-3.9/pmg_qt/syntax/python.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax copying build/lib.linux-x86_64-3.9/pmg_qt/TextEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/advanced_settings_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/builder.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/file_dialogs.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/keymapping.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/mimic_pmg_tk.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/mimic_tk.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/properties_dialog.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/pymol_gl_widget.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/pymol_qt_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/shortcut_menu_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt copying build/lib.linux-x86_64-3.9/pmg_qt/volume.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/demo copying build/lib.linux-x86_64-3.9/pmg_tk/skins/demo/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/demo creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal copying build/lib.linux-x86_64-3.9/pmg_tk/skins/normal/ModalWindow.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal copying build/lib.linux-x86_64-3.9/pmg_tk/skins/normal/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal copying build/lib.linux-x86_64-3.9/pmg_tk/skins/normal/builder.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal copying build/lib.linux-x86_64-3.9/pmg_tk/skins/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/startup copying build/lib.linux-x86_64-3.9/pmg_tk/startup/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/startup copying build/lib.linux-x86_64-3.9/pmg_tk/ColorEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk copying build/lib.linux-x86_64-3.9/pmg_tk/Demo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk copying build/lib.linux-x86_64-3.9/pmg_tk/PyMOLMapLoad.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk copying build/lib.linux-x86_64-3.9/pmg_tk/SetEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk copying build/lib.linux-x86_64-3.9/pmg_tk/Setting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk copying build/lib.linux-x86_64-3.9/pmg_tk/TextEditor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk copying build/lib.linux-x86_64-3.9/pmg_tk/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk copying build/lib.linux-x86_64-3.9/pmg_tk/volume.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk copying build/lib.linux-x86_64-3.9/pmg_tk/PMGApp.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/_cmd.cpython-39-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt copying build/lib.linux-x86_64-3.9/pymol/Qt/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt copying build/lib.linux-x86_64-3.9/pymol/Qt/utils.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins copying build/lib.linux-x86_64-3.9/pymol/plugins/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins copying build/lib.linux-x86_64-3.9/pymol/plugins/installation.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins copying build/lib.linux-x86_64-3.9/pymol/plugins/legacysupport.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins copying build/lib.linux-x86_64-3.9/pymol/plugins/managergui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins copying build/lib.linux-x86_64-3.9/pymol/plugins/managergui_qt.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins copying build/lib.linux-x86_64-3.9/pymol/plugins/repository.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/stereochemistry copying build/lib.linux-x86_64-3.9/pymol/stereochemistry/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/stereochemistry creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/annotation.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/appearance.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/benchmark.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/box.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/charge.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/cleanup.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/command.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/demo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/density.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/distance.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/dragging.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/filter.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/label.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/measurement.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/message.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/mutagenesis.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/nucmutagenesis.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/openvr.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/pair_fit.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/pseudoatom.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/renaming.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/sculpting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/security.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/stereodemo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/wizard/toggle.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard copying build/lib.linux-x86_64-3.9/pymol/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/__main__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/_gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/api.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/callback.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/cgo.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/checking.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/cmd.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/colorprinting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/colorramping.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/commanding.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/completing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/computing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/constants.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/constants_palette.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/controlling.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/creating.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/diagnosing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/editing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/editor.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/experimenting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/exporting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/externing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/feedingback.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/fitting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/gui.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/headering.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/helping.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/importing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/internal.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/invocation.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/keyboard.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/keywords.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/lazyio.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/locking.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/menu.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/monitoring.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/morphing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/movie.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/moving.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/mpeg_encode.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/parser.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/parsing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/povray.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/preset.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/pymolhttpd.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/querying.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/rpc.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/save_shortcut.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/selecting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/selector.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/seqalign.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/setting.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/shortcut.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/shortcut_dict.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/shortcut_manager.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/util.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/vfont.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/viewing.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/wizarding.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/xray.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying build/lib.linux-x86_64-3.9/pymol/xwin.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2 copying build/lib.linux-x86_64-3.9/pymol2/__init__.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2 copying build/lib.linux-x86_64-3.9/pymol2/cmd2.py -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2 byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/commands.py to commands.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/realtime.py to realtime.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/state.py to state.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bmin/util.py to util.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/amber99.py to amber99.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/assign.py to assign.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/formal_charges.py to formal_charges.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fast/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/fragments/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmtf/io.py to io.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/amber.py to amber.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/keyword.py to keyword.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/realtime.py to realtime.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/tinker/state.py to state.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/arc.py to arc.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bond_amber.py to bond_amber.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bond_mmff.py to bond_mmff.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/bonds.py to bonds.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/brick.py to brick.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/cc1.py to cc1.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/charge.py to charge.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/cif.py to cif.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/cpv.py to cpv.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/dictdb.py to dictdb.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/gamess1.py to gamess1.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/gms.py to gms.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/hetatm.py to hetatm.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/io.py to io.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/lst.py to lst.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mae.py to mae.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/map.py to map.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mass.py to mass.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mmd.py to mmd.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/models.py to models.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mol.py to mol.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/mol2.py to mol2.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/neighbor.py to neighbor.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/pdb.py to pdb.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/pkl.py to pkl.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/place.py to place.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein.py to protein.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein_amber.py to protein_amber.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein_amber99.py to protein_amber99.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein_mmff.py to protein_mmff.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/protein_residues.py to protein_residues.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/sdf.py to sdf.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/solvate.py to solvate.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/water_amber.py to water_amber.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/water_residues.py to water_residues.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/xyz.py to xyz.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/forms/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax/pml.py to pml.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax/pmlparser.py to pmlparser.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/syntax/python.py to python.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/TextEditor.py to TextEditor.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/advanced_settings_gui.py to advanced_settings_gui.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/builder.py to builder.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/file_dialogs.py to file_dialogs.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/keymapping.py to keymapping.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/mimic_pmg_tk.py to mimic_pmg_tk.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/mimic_tk.py to mimic_tk.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/properties_dialog.py to properties_dialog.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/pymol_gl_widget.py to pymol_gl_widget.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/pymol_qt_gui.py to pymol_qt_gui.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/shortcut_menu_gui.py to shortcut_menu_gui.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_qt/volume.py to volume.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/demo/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal/ModalWindow.py to ModalWindow.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/normal/builder.py to builder.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/skins/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/startup/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/ColorEditor.py to ColorEditor.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/Demo.py to Demo.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/PyMOLMapLoad.py to PyMOLMapLoad.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/SetEditor.py to SetEditor.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/Setting.py to Setting.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/TextEditor.py to TextEditor.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/volume.py to volume.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pmg_tk/PMGApp.py to PMGApp.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/Qt/utils.py to utils.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/installation.py to installation.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/legacysupport.py to legacysupport.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/managergui.py to managergui.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/managergui_qt.py to managergui_qt.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/plugins/repository.py to repository.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/stereochemistry/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/annotation.py to annotation.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/appearance.py to appearance.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/benchmark.py to benchmark.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/box.py to box.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/charge.py to charge.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/cleanup.py to cleanup.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/command.py to command.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/demo.py to demo.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/density.py to density.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/distance.py to distance.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/dragging.py to dragging.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/filter.py to filter.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/label.py to label.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/measurement.py to measurement.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/message.py to message.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/mutagenesis.py to mutagenesis.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/nucmutagenesis.py to nucmutagenesis.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/openvr.py to openvr.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/pair_fit.py to pair_fit.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/pseudoatom.py to pseudoatom.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/renaming.py to renaming.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/sculpting.py to sculpting.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/security.py to security.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/stereodemo.py to stereodemo.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizard/toggle.py to toggle.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/__main__.py to __main__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/_gui.py to _gui.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/api.py to api.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/callback.py to callback.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/cgo.py to cgo.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/checking.py to checking.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/cmd.py to cmd.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/colorprinting.py to colorprinting.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/colorramping.py to colorramping.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/commanding.py to commanding.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/completing.py to completing.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/computing.py to computing.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/constants.py to constants.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/constants_palette.py to constants_palette.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/controlling.py to controlling.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/creating.py to creating.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/diagnosing.py to diagnosing.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/editing.py to editing.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/editor.py to editor.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/experimenting.py to experimenting.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/exporting.py to exporting.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/externing.py to externing.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/feedingback.py to feedingback.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/fitting.py to fitting.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/gui.py to gui.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/headering.py to headering.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/helping.py to helping.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/importing.py to importing.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/internal.py to internal.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/invocation.py to invocation.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/keyboard.py to keyboard.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/keywords.py to keywords.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/lazyio.py to lazyio.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/locking.py to locking.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/menu.py to menu.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/monitoring.py to monitoring.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/morphing.py to morphing.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/movie.py to movie.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/moving.py to moving.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/mpeg_encode.py to mpeg_encode.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/parser.py to parser.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/parsing.py to parsing.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/povray.py to povray.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/preset.py to preset.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymolhttpd.py to pymolhttpd.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/querying.py to querying.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/rpc.py to rpc.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/save_shortcut.py to save_shortcut.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/selecting.py to selecting.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/selector.py to selector.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/seqalign.py to seqalign.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/setting.py to setting.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/shortcut.py to shortcut.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/shortcut_dict.py to shortcut_dict.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/shortcut_manager.py to shortcut_manager.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/util.py to util.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/vfont.py to vfont.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/viewing.py to viewing.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/wizarding.py to wizarding.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/xray.py to xray.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/xwin.py to xwin.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol2/cmd2.py to cmd2.cpython-39.pyc writing byte-compilation script '/tmp/tmp5glyxato.py' /usr/bin/python3 /tmp/tmp5glyxato.py removing /tmp/tmp5glyxato.py running install_egg_info Writing /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol-2.5.0-py3.9.egg-info copying LICENSE -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol copying data -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/data copying test -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test copying examples -> /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/examples creating /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/bin + rm -rfv /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/bin/__pycache__ + echo '#!/bin/sh' + echo 'export PYMOL_PATH=/usr/lib64/python3.9/site-packages/pymol' + echo 'exec /usr/bin/python3 /usr/lib64/python3.9/site-packages/pymol/__init__.py "$@"' + cp -a data examples test /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/ + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/examples/devel/link_demo.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/examples/devel/particle01.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/examples/devel/particle02.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test/inp/B03.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test/inp/B05.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test/inp/B11.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/test/ref/T01.log + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/examples/devel/link_demo.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/examples/devel/particle01.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/examples/devel/particle02.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/test/inp/B03.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/test/inp/B05.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/test/inp/B11.py + rm -f /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/pymol_path/test/ref/T01.log + mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/bin + install -p -m 755 pymol /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/bin/ + desktop-file-install --vendor= --dir=/builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/applications /builddir/build/SOURCES/pymol.desktop + mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/pixmaps + install -p -m 644 /builddir/build/SOURCES/pymol.png /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/pixmaps/ + mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/metainfo + install -p -m 644 /builddir/build/SOURCES/pymol.appdata.xml /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/metainfo/ + appstream-util validate-relax --nonet /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64//usr/share/metainfo/pymol.appdata.xml /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64//usr/share/metainfo/pymol.appdata.xml: OK + /usr/lib/rpm/find-debuginfo.sh -j2 --strict-build-id -m -i --build-id-seed 2.5.0-3.1.TMM.el9 --unique-debug-suffix -2.5.0-3.1.TMM.el9.x86_64 --unique-debug-src-base pymol-2.5.0-3.1.TMM.el9.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 --remove-section .gnu.build.attributes -S debugsourcefiles.list /builddir/build/BUILD/pymol-open-source-2.5.0 explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/_champ.cpython-39-x86_64-linux-gnu.so explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/_cmd.cpython-39-x86_64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/chempy/champ/_champ.cpython-39-x86_64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9/site-packages/pymol/_cmd.cpython-39-x86_64-linux-gnu.so original debug info size: 60900kB, size after compression: 44504kB /usr/lib/rpm/sepdebugcrcfix: Updated 2 CRC32s, 0 CRC32s did match. 51230 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 Bytecompiling .py files below /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib/debug/usr/lib64/python3.9 using python3.9 Bytecompiling .py files below /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/lib64/python3.9 using python3.9 + /usr/lib/rpm/brp-python-hardlink + /usr/lib/rpm/redhat/brp-mangle-shebangs *** WARNING: ./usr/src/debug/pymol-2.5.0-3.1.TMM.el9.x86_64/layer3/MaeExportHelpers.h is executable but has no shebang, removing executable bit *** WARNING: ./usr/src/debug/pymol-2.5.0-3.1.TMM.el9.x86_64/layer3/MaeExportHelpers.cpp is executable but has no shebang, removing executable bit *** WARNING: ./usr/src/debug/pymol-2.5.0-3.1.TMM.el9.x86_64/layer0/GraphicsUtil.h is executable but has no shebang, removing executable bit *** WARNING: ./usr/src/debug/pymol-2.5.0-3.1.TMM.el9.x86_64/layer0/GraphicsUtil.cpp is executable but has no shebang, removing executable bit mangling shebang in /usr/bin/pymol from /bin/sh to #!/usr/bin/sh Processing files: pymol-2.5.0-3.1.TMM.el9.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.ubex4h + umask 022 + cd /builddir/build/BUILD + cd pymol-open-source-2.5.0 + DOCDIR=/builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/doc/pymol + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/doc/pymol + cp -pr AUTHORS /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/doc/pymol + cp -pr DEVELOPERS /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/doc/pymol + cp -pr README.md /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/doc/pymol + cp -pr ChangeLog /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/doc/pymol + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.nnrTJ5 + umask 022 + cd /builddir/build/BUILD + cd pymol-open-source-2.5.0 + LICENSEDIR=/builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/licenses/pymol + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/licenses/pymol + cp -pr LICENSE /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64/usr/share/licenses/pymol + RPM_EC=0 ++ jobs -p + exit 0 Provides: PyMOL(x86-64) = 0:2.5.0-3.1.TMM.el9 application() application(pymol.desktop) metainfo() metainfo(pymol.appdata.xml) pymol = 2.5.0-3.1.TMM.el9 pymol(x86-64) = 2.5.0-3.1.TMM.el9 python3.9dist(pymol) = 2.5 python3dist(pymol) = 2.5 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: /usr/bin/sh libGL.so.1()(64bit) libGLEW.so.2.2()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libfreetype.so.6()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgomp.so.1()(64bit) libgomp.so.1(GOMP_1.0)(64bit) libgomp.so.1(GOMP_4.0)(64bit) libgomp.so.1(OMP_1.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.27)(64bit) libm.so.6(GLIBC_2.29)(64bit) libnetcdf.so.19()(64bit) libpng16.so.16()(64bit) libpng16.so.16(PNG16_0)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.5)(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_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) libxml2.so.2()(64bit) libxml2.so.2(LIBXML2_2.4.30)(64bit) libxml2.so.2(LIBXML2_2.6.0)(64bit) libxml2.so.2(LIBXML2_2.6.3)(64bit) python(abi) = 3.9 rtld(GNU_HASH) Processing files: pymol-debugsource-2.5.0-3.1.TMM.el9.x86_64 Provides: pymol-debugsource = 2.5.0-3.1.TMM.el9 pymol-debugsource(x86-64) = 2.5.0-3.1.TMM.el9 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: pymol-debuginfo-2.5.0-3.1.TMM.el9.x86_64 Provides: debuginfo(build-id) = 2d0c4ef41a1781fdc7a24ff41395f8dc6bf1a9f6 debuginfo(build-id) = dda1b0e82eca4796c6525d7c736370ecc9e29ab5 pymol-debuginfo = 2.5.0-3.1.TMM.el9 pymol-debuginfo(x86-64) = 2.5.0-3.1.TMM.el9 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: pymol-debugsource(x86-64) = 2.5.0-3.1.TMM.el9 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64 Wrote: /builddir/build/RPMS/pymol-debugsource-2.5.0-3.1.TMM.el9.x86_64.rpm Wrote: /builddir/build/RPMS/pymol-debuginfo-2.5.0-3.1.TMM.el9.x86_64.rpm Wrote: /builddir/build/RPMS/pymol-2.5.0-3.1.TMM.el9.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.Dr4VHY + umask 022 + cd /builddir/build/BUILD + cd pymol-open-source-2.5.0 + /usr/bin/rm -rf /builddir/build/BUILDROOT/pymol-2.5.0-3.1.TMM.el9.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild pymol-2.5.0-3.1.TMM.el9.src.rpm Finish: build phase for pymol-2.5.0-3.1.TMM.el9.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/rhel+epel-9-x86_64-1684328434.275329/root/var/log/dnf.rpm.log /var/lib/mock/rhel+epel-9-x86_64-1684328434.275329/root/var/log/dnf.librepo.log /var/lib/mock/rhel+epel-9-x86_64-1684328434.275329/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/pymol-2.5.0-3.1.TMM.el9.src.rpm) Config(child) 5 minutes 13 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 RPMResults tool